-- dump date 20140619_013152 -- class Genbank::misc_feature -- table misc_feature_note -- id note 406425000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 406425000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 406425000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425000004 Walker A motif; other site 406425000005 ATP binding site [chemical binding]; other site 406425000006 Walker B motif; other site 406425000007 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 406425000008 arginine finger; other site 406425000009 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 406425000010 DnaA box-binding interface [nucleotide binding]; other site 406425000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 406425000012 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 406425000013 putative DNA binding surface [nucleotide binding]; other site 406425000014 dimer interface [polypeptide binding]; other site 406425000015 beta-clamp/clamp loader binding surface; other site 406425000016 beta-clamp/translesion DNA polymerase binding surface; other site 406425000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 406425000018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425000019 ATP binding site [chemical binding]; other site 406425000020 Mg2+ binding site [ion binding]; other site 406425000021 G-X-G motif; other site 406425000022 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 406425000023 anchoring element; other site 406425000024 dimer interface [polypeptide binding]; other site 406425000025 ATP binding site [chemical binding]; other site 406425000026 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 406425000027 active site 406425000028 putative metal-binding site [ion binding]; other site 406425000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 406425000030 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 406425000031 active site 406425000032 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 406425000033 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 406425000034 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 406425000035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425000036 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425000037 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425000038 DNA binding residues [nucleotide binding] 406425000039 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425000040 ATP binding site [chemical binding]; other site 406425000041 Mg2+ binding site [ion binding]; other site 406425000042 G-X-G motif; other site 406425000043 Z1 domain; Region: Z1; pfam10593 406425000044 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 406425000045 AIPR protein; Region: AIPR; pfam10592 406425000046 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 406425000047 additional DNA contacts [nucleotide binding]; other site 406425000048 mismatch recognition site; other site 406425000049 active site 406425000050 zinc binding site [ion binding]; other site 406425000051 DNA intercalation site [nucleotide binding]; other site 406425000052 Restriction endonuclease; Region: Mrr_cat; pfam04471 406425000053 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 406425000054 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 406425000055 cofactor binding site; other site 406425000056 DNA binding site [nucleotide binding] 406425000057 substrate interaction site [chemical binding]; other site 406425000058 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425000059 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425000060 non-specific DNA binding site [nucleotide binding]; other site 406425000061 salt bridge; other site 406425000062 sequence-specific DNA binding site [nucleotide binding]; other site 406425000063 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 406425000064 Integrase core domain; Region: rve; pfam00665 406425000065 Integrase core domain; Region: rve_3; cl15866 406425000066 Bacterial TniB protein; Region: TniB; pfam05621 406425000067 AAA domain; Region: AAA_22; pfam13401 406425000068 TniQ; Region: TniQ; pfam06527 406425000069 TniQ; Region: TniQ; pfam06527 406425000070 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425000071 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 406425000072 putative active site [active] 406425000073 putative metal binding site [ion binding]; other site 406425000074 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 406425000075 active site 406425000076 TIGR02646 family protein; Region: TIGR02646 406425000077 ParB-like nuclease domain; Region: ParBc; pfam02195 406425000078 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 406425000079 RepB plasmid partitioning protein; Region: RepB; pfam07506 406425000080 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 406425000081 ParB-like nuclease domain; Region: ParB; smart00470 406425000082 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 406425000083 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 406425000084 catalytic residues [active] 406425000085 catalytic nucleophile [active] 406425000086 Recombinase; Region: Recombinase; pfam07508 406425000087 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 406425000088 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 406425000089 putative heme binding pocket [chemical binding]; other site 406425000090 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425000091 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425000092 DNA binding residues [nucleotide binding] 406425000093 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 406425000094 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 406425000095 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 406425000096 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425000097 Uncharacterized conserved protein [Function unknown]; Region: COG2128 406425000098 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 406425000099 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 406425000100 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 406425000101 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 406425000102 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 406425000103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425000104 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425000105 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425000106 Restriction endonuclease [Defense mechanisms]; Region: COG3587 406425000107 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425000108 ATP binding site [chemical binding]; other site 406425000109 putative Mg++ binding site [ion binding]; other site 406425000110 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 406425000111 DNA methylase; Region: N6_N4_Mtase; pfam01555 406425000112 DNA methylase; Region: N6_N4_Mtase; cl17433 406425000113 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425000114 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425000115 trimer interface [polypeptide binding]; other site 406425000116 eyelet of channel; other site 406425000117 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 406425000118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000119 active site 406425000120 phosphorylation site [posttranslational modification] 406425000121 intermolecular recognition site; other site 406425000122 dimerization interface [polypeptide binding]; other site 406425000123 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425000124 DNA binding site [nucleotide binding] 406425000125 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425000126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425000127 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425000128 dimer interface [polypeptide binding]; other site 406425000129 phosphorylation site [posttranslational modification] 406425000130 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425000131 ATP binding site [chemical binding]; other site 406425000132 Mg2+ binding site [ion binding]; other site 406425000133 G-X-G motif; other site 406425000134 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425000135 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425000136 dimer interface [polypeptide binding]; other site 406425000137 conserved gate region; other site 406425000138 putative PBP binding loops; other site 406425000139 ABC-ATPase subunit interface; other site 406425000140 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425000141 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425000142 Walker A/P-loop; other site 406425000143 ATP binding site [chemical binding]; other site 406425000144 Q-loop/lid; other site 406425000145 ABC transporter signature motif; other site 406425000146 Walker B; other site 406425000147 D-loop; other site 406425000148 H-loop/switch region; other site 406425000149 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 406425000150 NMT1/THI5 like; Region: NMT1; pfam09084 406425000151 membrane-bound complex binding site; other site 406425000152 hinge residues; other site 406425000153 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 406425000154 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 406425000155 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 406425000156 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 406425000157 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 406425000158 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 406425000159 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 406425000160 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 406425000161 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 406425000162 LrgA family; Region: LrgA; pfam03788 406425000163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425000164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425000165 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 406425000166 putative dimerization interface [polypeptide binding]; other site 406425000167 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 406425000168 putative active site [active] 406425000169 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 406425000170 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425000171 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425000172 putative substrate translocation pore; other site 406425000173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425000174 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425000175 MarR family; Region: MarR_2; cl17246 406425000176 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425000177 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 406425000178 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 406425000179 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 406425000180 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 406425000181 GspL periplasmic domain; Region: GspL_C; pfam12693 406425000182 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 406425000183 type II secretion system protein I; Region: gspI; TIGR01707 406425000184 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 406425000185 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 406425000186 Type II transport protein GspH; Region: GspH; pfam12019 406425000187 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 406425000188 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 406425000189 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 406425000190 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 406425000191 type II secretion system protein F; Region: GspF; TIGR02120 406425000192 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 406425000193 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 406425000194 type II secretion system protein E; Region: type_II_gspE; TIGR02533 406425000195 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 406425000196 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 406425000197 Walker A motif; other site 406425000198 ATP binding site [chemical binding]; other site 406425000199 Walker B motif; other site 406425000200 type II secretion system protein D; Region: type_II_gspD; TIGR02517 406425000201 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425000202 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425000203 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425000204 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 406425000205 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425000206 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 406425000207 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425000208 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425000209 catalytic residue [active] 406425000210 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 406425000211 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 406425000212 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 406425000213 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 406425000214 IHF dimer interface [polypeptide binding]; other site 406425000215 IHF - DNA interface [nucleotide binding]; other site 406425000216 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 406425000217 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 406425000218 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425000219 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 406425000220 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 406425000221 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 406425000222 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425000223 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425000224 putative DNA binding site [nucleotide binding]; other site 406425000225 putative Zn2+ binding site [ion binding]; other site 406425000226 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 406425000227 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 406425000228 catalytic triad [active] 406425000229 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425000230 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 406425000231 active site 406425000232 FMN binding site [chemical binding]; other site 406425000233 substrate binding site [chemical binding]; other site 406425000234 homotetramer interface [polypeptide binding]; other site 406425000235 catalytic residue [active] 406425000236 Proteins containing SET domain [General function prediction only]; Region: COG2940 406425000237 SET domain; Region: SET; pfam00856 406425000238 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425000239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425000240 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425000241 dimer interface [polypeptide binding]; other site 406425000242 phosphorylation site [posttranslational modification] 406425000243 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425000244 ATP binding site [chemical binding]; other site 406425000245 Mg2+ binding site [ion binding]; other site 406425000246 G-X-G motif; other site 406425000247 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425000248 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000249 active site 406425000250 phosphorylation site [posttranslational modification] 406425000251 intermolecular recognition site; other site 406425000252 dimerization interface [polypeptide binding]; other site 406425000253 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425000254 DNA binding site [nucleotide binding] 406425000255 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 406425000256 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 406425000257 aromatic arch; other site 406425000258 DCoH dimer interaction site [polypeptide binding]; other site 406425000259 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 406425000260 DCoH tetramer interaction site [polypeptide binding]; other site 406425000261 substrate binding site [chemical binding]; other site 406425000262 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 406425000263 cofactor binding site; other site 406425000264 metal binding site [ion binding]; metal-binding site 406425000265 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425000266 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 406425000267 putative DNA binding site [nucleotide binding]; other site 406425000268 putative Zn2+ binding site [ion binding]; other site 406425000269 AsnC family; Region: AsnC_trans_reg; pfam01037 406425000270 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 406425000271 putative active site [active] 406425000272 putative metal binding residues [ion binding]; other site 406425000273 signature motif; other site 406425000274 putative triphosphate binding site [ion binding]; other site 406425000275 dimer interface [polypeptide binding]; other site 406425000276 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425000277 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425000278 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425000279 dimerization interface [polypeptide binding]; other site 406425000280 choline dehydrogenase; Validated; Region: PRK02106 406425000281 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425000282 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425000283 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425000284 Walker A/P-loop; other site 406425000285 ATP binding site [chemical binding]; other site 406425000286 Q-loop/lid; other site 406425000287 ABC transporter signature motif; other site 406425000288 Walker B; other site 406425000289 D-loop; other site 406425000290 H-loop/switch region; other site 406425000291 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425000292 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425000293 Walker A/P-loop; other site 406425000294 ATP binding site [chemical binding]; other site 406425000295 Q-loop/lid; other site 406425000296 ABC transporter signature motif; other site 406425000297 Walker B; other site 406425000298 D-loop; other site 406425000299 H-loop/switch region; other site 406425000300 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425000301 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 406425000302 putative ligand binding site [chemical binding]; other site 406425000303 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425000304 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425000305 TM-ABC transporter signature motif; other site 406425000306 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425000307 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425000308 TM-ABC transporter signature motif; other site 406425000309 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425000310 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 406425000311 putative ligand binding site [chemical binding]; other site 406425000312 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425000313 TM-ABC transporter signature motif; other site 406425000314 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425000315 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425000316 TM-ABC transporter signature motif; other site 406425000317 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425000318 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425000319 Walker A/P-loop; other site 406425000320 ATP binding site [chemical binding]; other site 406425000321 Q-loop/lid; other site 406425000322 ABC transporter signature motif; other site 406425000323 Walker B; other site 406425000324 D-loop; other site 406425000325 H-loop/switch region; other site 406425000326 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425000327 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425000328 Walker A/P-loop; other site 406425000329 ATP binding site [chemical binding]; other site 406425000330 Q-loop/lid; other site 406425000331 ABC transporter signature motif; other site 406425000332 Walker B; other site 406425000333 D-loop; other site 406425000334 H-loop/switch region; other site 406425000335 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 406425000336 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 406425000337 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 406425000338 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 406425000339 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 406425000340 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425000341 S-adenosylmethionine binding site [chemical binding]; other site 406425000342 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 406425000343 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425000344 P-loop; other site 406425000345 Magnesium ion binding site [ion binding]; other site 406425000346 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425000347 Magnesium ion binding site [ion binding]; other site 406425000348 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 406425000349 ParB-like nuclease domain; Region: ParBc; pfam02195 406425000350 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 406425000351 transmembrane helices; other site 406425000352 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 406425000353 ATP synthase I chain; Region: ATP_synt_I; cl09170 406425000354 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 406425000355 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 406425000356 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 406425000357 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 406425000358 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 406425000359 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 406425000360 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 406425000361 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 406425000362 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 406425000363 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 406425000364 beta subunit interaction interface [polypeptide binding]; other site 406425000365 Walker A motif; other site 406425000366 ATP binding site [chemical binding]; other site 406425000367 Walker B motif; other site 406425000368 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 406425000369 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 406425000370 core domain interface [polypeptide binding]; other site 406425000371 delta subunit interface [polypeptide binding]; other site 406425000372 epsilon subunit interface [polypeptide binding]; other site 406425000373 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 406425000374 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 406425000375 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 406425000376 alpha subunit interaction interface [polypeptide binding]; other site 406425000377 Walker A motif; other site 406425000378 ATP binding site [chemical binding]; other site 406425000379 Walker B motif; other site 406425000380 inhibitor binding site; inhibition site 406425000381 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 406425000382 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 406425000383 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 406425000384 gamma subunit interface [polypeptide binding]; other site 406425000385 epsilon subunit interface [polypeptide binding]; other site 406425000386 LBP interface [polypeptide binding]; other site 406425000387 AMP-binding domain protein; Validated; Region: PRK08315 406425000388 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425000389 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 406425000390 acyl-activating enzyme (AAE) consensus motif; other site 406425000391 acyl-activating enzyme (AAE) consensus motif; other site 406425000392 putative AMP binding site [chemical binding]; other site 406425000393 putative active site [active] 406425000394 putative CoA binding site [chemical binding]; other site 406425000395 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425000396 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425000397 substrate binding pocket [chemical binding]; other site 406425000398 membrane-bound complex binding site; other site 406425000399 hinge residues; other site 406425000400 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 406425000401 substrate binding site [chemical binding]; other site 406425000402 active site 406425000403 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 406425000404 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425000405 ATP binding site [chemical binding]; other site 406425000406 putative Mg++ binding site [ion binding]; other site 406425000407 helicase superfamily c-terminal domain; Region: HELICc; smart00490 406425000408 nucleotide binding region [chemical binding]; other site 406425000409 ATP-binding site [chemical binding]; other site 406425000410 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 406425000411 Predicted transcriptional regulator [Transcription]; Region: COG3905 406425000412 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 406425000413 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 406425000414 Glutamate binding site [chemical binding]; other site 406425000415 NAD binding site [chemical binding]; other site 406425000416 catalytic residues [active] 406425000417 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425000418 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425000419 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425000420 dimerization interface [polypeptide binding]; other site 406425000421 ligand binding site [chemical binding]; other site 406425000422 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425000423 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425000424 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 406425000425 acyl-activating enzyme (AAE) consensus motif; other site 406425000426 acyl-activating enzyme (AAE) consensus motif; other site 406425000427 putative AMP binding site [chemical binding]; other site 406425000428 putative active site [active] 406425000429 putative CoA binding site [chemical binding]; other site 406425000430 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425000431 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425000432 active site 406425000433 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425000434 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425000435 putative aminotransferase; Provisional; Region: PRK12414 406425000436 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425000437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425000438 homodimer interface [polypeptide binding]; other site 406425000439 catalytic residue [active] 406425000440 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425000441 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425000442 substrate binding pocket [chemical binding]; other site 406425000443 membrane-bound complex binding site; other site 406425000444 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425000445 FAD binding domain; Region: FAD_binding_4; pfam01565 406425000446 Predicted transcriptional regulators [Transcription]; Region: COG1695 406425000447 Transcriptional regulator PadR-like family; Region: PadR; cl17335 406425000448 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 406425000449 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 406425000450 DNA binding residues [nucleotide binding] 406425000451 dimer interface [polypeptide binding]; other site 406425000452 putative metal binding site [ion binding]; other site 406425000453 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 406425000454 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 406425000455 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 406425000456 Double zinc ribbon; Region: DZR; pfam12773 406425000457 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425000458 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425000459 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 406425000460 Conserved TM helix; Region: TM_helix; pfam05552 406425000461 ethanolamine permease; Region: 2A0305; TIGR00908 406425000462 hypothetical protein; Provisional; Region: PHA02764 406425000463 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 406425000464 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 406425000465 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 406425000466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425000467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425000468 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 406425000469 putative effector binding pocket; other site 406425000470 putative dimerization interface [polypeptide binding]; other site 406425000471 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425000472 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425000473 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425000474 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 406425000475 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425000476 NAD(P) binding site [chemical binding]; other site 406425000477 catalytic residues [active] 406425000478 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425000479 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425000480 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425000481 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425000482 thiamine pyrophosphate protein; Validated; Region: PRK08199 406425000483 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425000484 PYR/PP interface [polypeptide binding]; other site 406425000485 dimer interface [polypeptide binding]; other site 406425000486 TPP binding site [chemical binding]; other site 406425000487 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425000488 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 406425000489 TPP-binding site [chemical binding]; other site 406425000490 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 406425000491 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425000492 oligomeric interface; other site 406425000493 putative active site [active] 406425000494 homodimer interface [polypeptide binding]; other site 406425000495 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 406425000496 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 406425000497 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 406425000498 Alginate lyase; Region: Alginate_lyase; pfam05426 406425000499 glycine dehydrogenase; Provisional; Region: PRK05367 406425000500 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425000501 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425000502 catalytic residue [active] 406425000503 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 406425000504 tetramer interface [polypeptide binding]; other site 406425000505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425000506 catalytic residue [active] 406425000507 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 406425000508 lipoyl attachment site [posttranslational modification]; other site 406425000509 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 406425000510 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 406425000511 putative oxidoreductase; Provisional; Region: PRK11579 406425000512 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 406425000513 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 406425000514 active site 406425000515 catalytic triad [active] 406425000516 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 406425000517 Part of AAA domain; Region: AAA_19; pfam13245 406425000518 Family description; Region: UvrD_C_2; pfam13538 406425000519 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 406425000520 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 406425000521 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425000522 active site 406425000523 DNA binding site [nucleotide binding] 406425000524 Int/Topo IB signature motif; other site 406425000525 DNA primase domain-containing protein; Region: PHA02415 406425000526 CHC2 zinc finger; Region: zf-CHC2; cl17510 406425000527 Toprim domain; Region: Toprim_3; pfam13362 406425000528 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 406425000529 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 406425000530 sequence-specific DNA binding site [nucleotide binding]; other site 406425000531 salt bridge; other site 406425000532 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425000533 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425000534 tail protein; Provisional; Region: D; PHA02561 406425000535 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 406425000536 Phage-related tail protein [Function unknown]; Region: COG5283 406425000537 Phage-related minor tail protein [Function unknown]; Region: COG5280 406425000538 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 406425000539 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 406425000540 Phage tail tube protein FII; Region: Phage_tube; pfam04985 406425000541 major tail sheath protein; Provisional; Region: FI; PHA02560 406425000542 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 406425000543 DNA methylase; Region: N6_N4_Mtase; pfam01555 406425000544 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 406425000545 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 406425000546 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 406425000547 Baseplate J-like protein; Region: Baseplate_J; cl01294 406425000548 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 406425000549 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 406425000550 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 406425000551 AIPR protein; Region: AIPR; pfam10592 406425000552 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 406425000553 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 406425000554 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 406425000555 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 406425000556 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 406425000557 Protein of unknown function (DUF754); Region: DUF754; pfam05449 406425000558 Phage Tail Protein X; Region: Phage_tail_X; cl02088 406425000559 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 406425000560 terminase endonuclease subunit; Provisional; Region: M; PHA02537 406425000561 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 406425000562 capsid protein; Provisional; Region: N; PHA02538 406425000563 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 406425000564 terminase ATPase subunit; Provisional; Region: P; PHA02535 406425000565 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 406425000566 Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may...; Region: SynN; cl00143 406425000567 nSec1 interaction sites; other site 406425000568 interdomain interaction site; other site 406425000569 linker region; other site 406425000570 portal vertex protein; Provisional; Region: Q; PHA02536 406425000571 Phage portal protein; Region: Phage_portal; pfam04860 406425000572 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 406425000573 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 406425000574 VRR-NUC domain; Region: VRR_NUC; pfam08774 406425000575 PAAR motif; Region: PAAR_motif; pfam05488 406425000576 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 406425000577 synthetase active site [active] 406425000578 NTP binding site [chemical binding]; other site 406425000579 metal binding site [ion binding]; metal-binding site 406425000580 Uncharacterized conserved protein [Function unknown]; Region: COG4278 406425000581 TIGR04222 domain; Region: near_uncomplex 406425000582 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 406425000583 trimer interface [polypeptide binding]; other site 406425000584 active site 406425000585 substrate binding site [chemical binding]; other site 406425000586 CoA binding site [chemical binding]; other site 406425000587 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425000588 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000589 binding surface 406425000590 TPR motif; other site 406425000591 Tetratricopeptide repeat; Region: TPR_12; pfam13424 406425000592 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000593 binding surface 406425000594 TPR motif; other site 406425000595 TPR repeat; Region: TPR_11; pfam13414 406425000596 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425000597 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 406425000598 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 406425000599 putative trimer interface [polypeptide binding]; other site 406425000600 putative CoA binding site [chemical binding]; other site 406425000601 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 406425000602 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 406425000603 inhibitor-cofactor binding pocket; inhibition site 406425000604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425000605 catalytic residue [active] 406425000606 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425000607 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000608 TPR motif; other site 406425000609 binding surface 406425000610 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000611 binding surface 406425000612 TPR motif; other site 406425000613 TPR repeat; Region: TPR_11; pfam13414 406425000614 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000615 TPR motif; other site 406425000616 binding surface 406425000617 TPR repeat; Region: TPR_11; pfam13414 406425000618 flagellar capping protein; Reviewed; Region: fliD; PRK08032 406425000619 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 406425000620 flagellin; Reviewed; Region: PRK08869 406425000621 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 406425000622 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 406425000623 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 406425000624 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425000625 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425000626 N-terminal plug; other site 406425000627 ligand-binding site [chemical binding]; other site 406425000628 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 406425000629 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 406425000630 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 406425000631 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 406425000632 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 406425000633 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 406425000634 putative hydrolase; Provisional; Region: PRK10976 406425000635 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425000636 active site 406425000637 motif I; other site 406425000638 motif II; other site 406425000639 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 406425000640 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 406425000641 amphipathic channel; other site 406425000642 Asn-Pro-Ala signature motifs; other site 406425000643 H-NS histone family; Region: Histone_HNS; pfam00816 406425000644 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425000645 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 406425000646 putative ADP-binding pocket [chemical binding]; other site 406425000647 transcriptional activator FlhD; Provisional; Region: PRK02909 406425000648 transcriptional activator FlhC; Provisional; Region: PRK12722 406425000649 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 406425000650 flagellar motor protein MotA; Validated; Region: PRK09110 406425000651 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 406425000652 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 406425000653 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425000654 ligand binding site [chemical binding]; other site 406425000655 Response regulator receiver domain; Region: Response_reg; pfam00072 406425000656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000657 active site 406425000658 phosphorylation site [posttranslational modification] 406425000659 intermolecular recognition site; other site 406425000660 dimerization interface [polypeptide binding]; other site 406425000661 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 406425000662 putative binding surface; other site 406425000663 active site 406425000664 CheY binding; Region: CheY-binding; pfam09078 406425000665 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 406425000666 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425000667 ATP binding site [chemical binding]; other site 406425000668 Mg2+ binding site [ion binding]; other site 406425000669 G-X-G motif; other site 406425000670 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 406425000671 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 406425000672 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425000673 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 406425000674 dimer interface [polypeptide binding]; other site 406425000675 ligand binding site [chemical binding]; other site 406425000676 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425000677 dimerization interface [polypeptide binding]; other site 406425000678 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425000679 dimer interface [polypeptide binding]; other site 406425000680 putative CheW interface [polypeptide binding]; other site 406425000681 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 406425000682 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 406425000683 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 406425000684 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 406425000685 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 406425000686 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000687 active site 406425000688 phosphorylation site [posttranslational modification] 406425000689 intermolecular recognition site; other site 406425000690 dimerization interface [polypeptide binding]; other site 406425000691 CheB methylesterase; Region: CheB_methylest; pfam01339 406425000692 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 406425000693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000694 active site 406425000695 phosphorylation site [posttranslational modification] 406425000696 intermolecular recognition site; other site 406425000697 dimerization interface [polypeptide binding]; other site 406425000698 chemotaxis regulator CheZ; Provisional; Region: PRK11166 406425000699 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 406425000700 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 406425000701 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 406425000702 dimer interface [polypeptide binding]; other site 406425000703 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 406425000704 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 406425000705 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 406425000706 FHIPEP family; Region: FHIPEP; pfam00771 406425000707 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 406425000708 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 406425000709 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 406425000710 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 406425000711 P-loop; other site 406425000712 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 406425000713 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425000714 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425000715 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425000716 DNA binding residues [nucleotide binding] 406425000717 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 406425000718 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 406425000719 homotetramer interface [polypeptide binding]; other site 406425000720 ligand binding site [chemical binding]; other site 406425000721 catalytic site [active] 406425000722 NAD binding site [chemical binding]; other site 406425000723 Predicted membrane protein [Function unknown]; Region: COG1950 406425000724 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 406425000725 FAD binding site [chemical binding]; other site 406425000726 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 406425000727 Amidase; Region: Amidase; cl11426 406425000728 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 406425000729 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 406425000730 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425000731 FMN binding site [chemical binding]; other site 406425000732 substrate binding site [chemical binding]; other site 406425000733 putative catalytic residue [active] 406425000734 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425000735 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425000736 dimerization interface [polypeptide binding]; other site 406425000737 ligand binding site [chemical binding]; other site 406425000738 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 406425000739 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 406425000740 H-NS histone family; Region: Histone_HNS; pfam00816 406425000741 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425000742 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 406425000743 Cation efflux family; Region: Cation_efflux; pfam01545 406425000744 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425000745 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425000746 putative DNA binding site [nucleotide binding]; other site 406425000747 putative Zn2+ binding site [ion binding]; other site 406425000748 AsnC family; Region: AsnC_trans_reg; pfam01037 406425000749 active site 406425000750 catalytic site [active] 406425000751 substrate binding site [chemical binding]; other site 406425000752 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 406425000753 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 406425000754 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 406425000755 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 406425000756 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425000757 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425000758 putative active site [active] 406425000759 putative NTP binding site [chemical binding]; other site 406425000760 putative nucleic acid binding site [nucleotide binding]; other site 406425000761 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425000762 Predicted methyltransferases [General function prediction only]; Region: COG0313 406425000763 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 406425000764 putative SAM binding site [chemical binding]; other site 406425000765 putative homodimer interface [polypeptide binding]; other site 406425000766 hypothetical protein; Provisional; Region: PRK14673 406425000767 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 406425000768 active site 406425000769 dimer interface [polypeptide binding]; other site 406425000770 outer membrane lipoprotein; Provisional; Region: PRK11023 406425000771 BON domain; Region: BON; pfam04972 406425000772 BON domain; Region: BON; cl02771 406425000773 Cytochrome c; Region: Cytochrom_C; cl11414 406425000774 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 406425000775 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 406425000776 active site 406425000777 tetramer interface [polypeptide binding]; other site 406425000778 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425000779 D-galactonate transporter; Region: 2A0114; TIGR00893 406425000780 putative substrate translocation pore; other site 406425000781 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425000782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425000783 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425000784 putative effector binding pocket; other site 406425000785 dimerization interface [polypeptide binding]; other site 406425000786 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425000787 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 406425000788 C-terminal domain interface [polypeptide binding]; other site 406425000789 GSH binding site (G-site) [chemical binding]; other site 406425000790 dimer interface [polypeptide binding]; other site 406425000791 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 406425000792 N-terminal domain interface [polypeptide binding]; other site 406425000793 dimer interface [polypeptide binding]; other site 406425000794 substrate binding pocket (H-site) [chemical binding]; other site 406425000795 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 406425000796 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 406425000797 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 406425000798 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425000799 FtsX-like permease family; Region: FtsX; pfam02687 406425000800 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 406425000801 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 406425000802 Walker A/P-loop; other site 406425000803 ATP binding site [chemical binding]; other site 406425000804 Q-loop/lid; other site 406425000805 ABC transporter signature motif; other site 406425000806 Walker B; other site 406425000807 D-loop; other site 406425000808 H-loop/switch region; other site 406425000809 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425000810 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425000811 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 406425000812 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 406425000813 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425000814 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425000815 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425000816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425000817 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425000818 dimerization interface [polypeptide binding]; other site 406425000819 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 406425000820 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 406425000821 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 406425000822 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 406425000823 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 406425000824 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 406425000825 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425000826 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 406425000827 substrate binding site [chemical binding]; other site 406425000828 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425000829 active site 406425000830 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 406425000831 Malic enzyme, N-terminal domain; Region: malic; pfam00390 406425000832 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 406425000833 putative NAD(P) binding site [chemical binding]; other site 406425000834 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 406425000835 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 406425000836 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 406425000837 dimer interface [polypeptide binding]; other site 406425000838 PYR/PP interface [polypeptide binding]; other site 406425000839 TPP binding site [chemical binding]; other site 406425000840 substrate binding site [chemical binding]; other site 406425000841 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 406425000842 TPP-binding site; other site 406425000843 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 406425000844 Sfi1 spindle body protein; Region: Sfi1; pfam08457 406425000845 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 406425000846 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 406425000847 dimer interface [polypeptide binding]; other site 406425000848 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 406425000849 active site 406425000850 Fe binding site [ion binding]; other site 406425000851 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425000852 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425000853 putative DNA binding site [nucleotide binding]; other site 406425000854 putative Zn2+ binding site [ion binding]; other site 406425000855 AsnC family; Region: AsnC_trans_reg; pfam01037 406425000856 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425000857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425000858 Coenzyme A binding pocket [chemical binding]; other site 406425000859 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425000860 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425000861 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 406425000862 Protein of unknown function; Region: DUF3658; pfam12395 406425000863 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 406425000864 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 406425000865 FAD binding pocket [chemical binding]; other site 406425000866 FAD binding motif [chemical binding]; other site 406425000867 phosphate binding motif [ion binding]; other site 406425000868 beta-alpha-beta structure motif; other site 406425000869 NAD(p) ribose binding residues [chemical binding]; other site 406425000870 NAD binding pocket [chemical binding]; other site 406425000871 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 406425000872 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425000873 catalytic loop [active] 406425000874 iron binding site [ion binding]; other site 406425000875 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 406425000876 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 406425000877 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 406425000878 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 406425000879 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 406425000880 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 406425000881 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 406425000882 active site 406425000883 catalytic triad [active] 406425000884 oxyanion hole [active] 406425000885 elongation factor Tu; Reviewed; Region: PRK00049 406425000886 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 406425000887 G1 box; other site 406425000888 GEF interaction site [polypeptide binding]; other site 406425000889 GTP/Mg2+ binding site [chemical binding]; other site 406425000890 Switch I region; other site 406425000891 G2 box; other site 406425000892 G3 box; other site 406425000893 Switch II region; other site 406425000894 G4 box; other site 406425000895 G5 box; other site 406425000896 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 406425000897 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 406425000898 Antibiotic Binding Site [chemical binding]; other site 406425000899 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 406425000900 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 406425000901 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 406425000902 putative homodimer interface [polypeptide binding]; other site 406425000903 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 406425000904 heterodimer interface [polypeptide binding]; other site 406425000905 homodimer interface [polypeptide binding]; other site 406425000906 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 406425000907 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 406425000908 23S rRNA interface [nucleotide binding]; other site 406425000909 L7/L12 interface [polypeptide binding]; other site 406425000910 putative thiostrepton binding site; other site 406425000911 L25 interface [polypeptide binding]; other site 406425000912 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 406425000913 mRNA/rRNA interface [nucleotide binding]; other site 406425000914 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 406425000915 23S rRNA interface [nucleotide binding]; other site 406425000916 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 406425000917 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 406425000918 peripheral dimer interface [polypeptide binding]; other site 406425000919 core dimer interface [polypeptide binding]; other site 406425000920 L10 interface [polypeptide binding]; other site 406425000921 L11 interface [polypeptide binding]; other site 406425000922 putative EF-Tu interaction site [polypeptide binding]; other site 406425000923 putative EF-G interaction site [polypeptide binding]; other site 406425000924 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 406425000925 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 406425000926 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 406425000927 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 406425000928 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 406425000929 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 406425000930 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 406425000931 RPB3 interaction site [polypeptide binding]; other site 406425000932 RPB1 interaction site [polypeptide binding]; other site 406425000933 RPB11 interaction site [polypeptide binding]; other site 406425000934 RPB10 interaction site [polypeptide binding]; other site 406425000935 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 406425000936 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 406425000937 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 406425000938 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 406425000939 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 406425000940 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 406425000941 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 406425000942 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 406425000943 DNA binding site [nucleotide binding] 406425000944 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 406425000945 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 406425000946 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425000947 ATP binding site [chemical binding]; other site 406425000948 putative Mg++ binding site [ion binding]; other site 406425000949 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425000950 nucleotide binding region [chemical binding]; other site 406425000951 ATP-binding site [chemical binding]; other site 406425000952 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 406425000953 HRDC domain; Region: HRDC; pfam00570 406425000954 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 406425000955 S17 interaction site [polypeptide binding]; other site 406425000956 S8 interaction site; other site 406425000957 16S rRNA interaction site [nucleotide binding]; other site 406425000958 streptomycin interaction site [chemical binding]; other site 406425000959 23S rRNA interaction site [nucleotide binding]; other site 406425000960 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 406425000961 30S ribosomal protein S7; Validated; Region: PRK05302 406425000962 elongation factor G; Reviewed; Region: PRK00007 406425000963 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 406425000964 G1 box; other site 406425000965 putative GEF interaction site [polypeptide binding]; other site 406425000966 GTP/Mg2+ binding site [chemical binding]; other site 406425000967 Switch I region; other site 406425000968 G2 box; other site 406425000969 G3 box; other site 406425000970 Switch II region; other site 406425000971 G4 box; other site 406425000972 G5 box; other site 406425000973 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 406425000974 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 406425000975 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 406425000976 elongation factor Tu; Reviewed; Region: PRK00049 406425000977 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 406425000978 G1 box; other site 406425000979 GEF interaction site [polypeptide binding]; other site 406425000980 GTP/Mg2+ binding site [chemical binding]; other site 406425000981 Switch I region; other site 406425000982 G2 box; other site 406425000983 G3 box; other site 406425000984 Switch II region; other site 406425000985 G4 box; other site 406425000986 G5 box; other site 406425000987 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 406425000988 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 406425000989 Antibiotic Binding Site [chemical binding]; other site 406425000990 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 406425000991 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 406425000992 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 406425000993 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 406425000994 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 406425000995 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 406425000996 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 406425000997 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 406425000998 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 406425000999 putative translocon binding site; other site 406425001000 protein-rRNA interface [nucleotide binding]; other site 406425001001 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 406425001002 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 406425001003 G-X-X-G motif; other site 406425001004 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 406425001005 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 406425001006 23S rRNA interface [nucleotide binding]; other site 406425001007 5S rRNA interface [nucleotide binding]; other site 406425001008 putative antibiotic binding site [chemical binding]; other site 406425001009 L25 interface [polypeptide binding]; other site 406425001010 L27 interface [polypeptide binding]; other site 406425001011 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 406425001012 23S rRNA interface [nucleotide binding]; other site 406425001013 putative translocon interaction site; other site 406425001014 signal recognition particle (SRP54) interaction site; other site 406425001015 L23 interface [polypeptide binding]; other site 406425001016 trigger factor interaction site; other site 406425001017 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 406425001018 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 406425001019 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 406425001020 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 406425001021 RNA binding site [nucleotide binding]; other site 406425001022 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 406425001023 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 406425001024 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 406425001025 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 406425001026 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 406425001027 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 406425001028 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 406425001029 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 406425001030 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 406425001031 5S rRNA interface [nucleotide binding]; other site 406425001032 L27 interface [polypeptide binding]; other site 406425001033 23S rRNA interface [nucleotide binding]; other site 406425001034 L5 interface [polypeptide binding]; other site 406425001035 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 406425001036 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 406425001037 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 406425001038 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 406425001039 23S rRNA binding site [nucleotide binding]; other site 406425001040 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 406425001041 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 406425001042 SecY translocase; Region: SecY; pfam00344 406425001043 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 406425001044 rRNA binding site [nucleotide binding]; other site 406425001045 predicted 30S ribosome binding site; other site 406425001046 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 406425001047 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 406425001048 30S ribosomal protein S13; Region: bact_S13; TIGR03631 406425001049 30S ribosomal protein S11; Validated; Region: PRK05309 406425001050 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 406425001051 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 406425001052 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425001053 RNA binding surface [nucleotide binding]; other site 406425001054 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 406425001055 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 406425001056 alphaNTD homodimer interface [polypeptide binding]; other site 406425001057 alphaNTD - beta interaction site [polypeptide binding]; other site 406425001058 alphaNTD - beta' interaction site [polypeptide binding]; other site 406425001059 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 406425001060 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 406425001061 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 406425001062 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 406425001063 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 406425001064 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 406425001065 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 406425001066 DsbD alpha interface [polypeptide binding]; other site 406425001067 catalytic residues [active] 406425001068 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 406425001069 dimer interface [polypeptide binding]; other site 406425001070 active site 406425001071 aspartate-rich active site metal binding site; other site 406425001072 allosteric magnesium binding site [ion binding]; other site 406425001073 Schiff base residues; other site 406425001074 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 406425001075 G1 box; other site 406425001076 GTP/Mg2+ binding site [chemical binding]; other site 406425001077 Switch I region; other site 406425001078 G2 box; other site 406425001079 G3 box; other site 406425001080 Switch II region; other site 406425001081 G4 box; other site 406425001082 G5 box; other site 406425001083 Cytochrome c553 [Energy production and conversion]; Region: COG2863 406425001084 Cytochrome c; Region: Cytochrom_C; cl11414 406425001085 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 406425001086 ResB-like family; Region: ResB; pfam05140 406425001087 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 406425001088 ResB-like family; Region: ResB; pfam05140 406425001089 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 406425001090 TMAO/DMSO reductase; Reviewed; Region: PRK05363 406425001091 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 406425001092 Moco binding site; other site 406425001093 metal coordination site [ion binding]; other site 406425001094 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 406425001095 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 406425001096 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 406425001097 putative iron binding site [ion binding]; other site 406425001098 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 406425001099 Transglycosylase; Region: Transgly; pfam00912 406425001100 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 406425001101 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 406425001102 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 406425001103 Secretin and TonB N terminus short domain; Region: STN; pfam07660 406425001104 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425001105 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425001106 shikimate kinase; Reviewed; Region: aroK; PRK00131 406425001107 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 406425001108 ADP binding site [chemical binding]; other site 406425001109 magnesium binding site [ion binding]; other site 406425001110 putative shikimate binding site; other site 406425001111 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 406425001112 active site 406425001113 dimer interface [polypeptide binding]; other site 406425001114 metal binding site [ion binding]; metal-binding site 406425001115 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 406425001116 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425001117 Zn2+ binding site [ion binding]; other site 406425001118 Mg2+ binding site [ion binding]; other site 406425001119 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 406425001120 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425001121 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 406425001122 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 406425001123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425001124 dimer interface [polypeptide binding]; other site 406425001125 conserved gate region; other site 406425001126 putative PBP binding loops; other site 406425001127 ABC-ATPase subunit interface; other site 406425001128 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425001129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425001130 dimer interface [polypeptide binding]; other site 406425001131 conserved gate region; other site 406425001132 putative PBP binding loops; other site 406425001133 ABC-ATPase subunit interface; other site 406425001134 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 406425001135 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 406425001136 Walker A/P-loop; other site 406425001137 ATP binding site [chemical binding]; other site 406425001138 Q-loop/lid; other site 406425001139 ABC transporter signature motif; other site 406425001140 Walker B; other site 406425001141 D-loop; other site 406425001142 H-loop/switch region; other site 406425001143 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 406425001144 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 406425001145 active site 406425001146 catalytic site [active] 406425001147 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 406425001148 Transposase IS200 like; Region: Y1_Tnp; cl00848 406425001149 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 406425001150 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 406425001151 active site 406425001152 dimer interface [polypeptide binding]; other site 406425001153 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 406425001154 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 406425001155 active site 406425001156 FMN binding site [chemical binding]; other site 406425001157 substrate binding site [chemical binding]; other site 406425001158 3Fe-4S cluster binding site [ion binding]; other site 406425001159 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 406425001160 domain interface; other site 406425001161 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 406425001162 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425001163 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425001164 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 406425001165 amino acid carrier protein; Region: agcS; TIGR00835 406425001166 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 406425001167 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 406425001168 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425001169 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425001170 benzoate transport; Region: 2A0115; TIGR00895 406425001171 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425001172 putative substrate translocation pore; other site 406425001173 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 406425001174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425001175 NAD(P) binding site [chemical binding]; other site 406425001176 active site 406425001177 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 406425001178 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 406425001179 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 406425001180 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 406425001181 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 406425001182 sulfur carrier protein ThiS; Provisional; Region: PRK06944 406425001183 charged pocket; other site 406425001184 hydrophobic patch; other site 406425001185 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 406425001186 ThiS interaction site; other site 406425001187 putative active site [active] 406425001188 tetramer interface [polypeptide binding]; other site 406425001189 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 406425001190 thiamine phosphate binding site [chemical binding]; other site 406425001191 active site 406425001192 pyrophosphate binding site [ion binding]; other site 406425001193 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 406425001194 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 406425001195 Walker A/P-loop; other site 406425001196 ATP binding site [chemical binding]; other site 406425001197 Q-loop/lid; other site 406425001198 ABC transporter signature motif; other site 406425001199 Walker B; other site 406425001200 D-loop; other site 406425001201 H-loop/switch region; other site 406425001202 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 406425001203 Permease; Region: Permease; pfam02405 406425001204 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 406425001205 mce related protein; Region: MCE; pfam02470 406425001206 VacJ like lipoprotein; Region: VacJ; cl01073 406425001207 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 406425001208 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 406425001209 anti sigma factor interaction site; other site 406425001210 regulatory phosphorylation site [posttranslational modification]; other site 406425001211 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 406425001212 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 406425001213 Walker A/P-loop; other site 406425001214 ATP binding site [chemical binding]; other site 406425001215 Q-loop/lid; other site 406425001216 ABC transporter signature motif; other site 406425001217 Walker B; other site 406425001218 D-loop; other site 406425001219 H-loop/switch region; other site 406425001220 ABC-2 type transporter; Region: ABC2_membrane; cl17235 406425001221 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 406425001222 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 406425001223 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 406425001224 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 406425001225 hinge; other site 406425001226 active site 406425001227 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 406425001228 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 406425001229 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 406425001230 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 406425001231 NAD binding site [chemical binding]; other site 406425001232 dimerization interface [polypeptide binding]; other site 406425001233 product binding site; other site 406425001234 substrate binding site [chemical binding]; other site 406425001235 zinc binding site [ion binding]; other site 406425001236 catalytic residues [active] 406425001237 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 406425001238 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425001239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425001240 homodimer interface [polypeptide binding]; other site 406425001241 catalytic residue [active] 406425001242 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 406425001243 putative active site pocket [active] 406425001244 4-fold oligomerization interface [polypeptide binding]; other site 406425001245 metal binding residues [ion binding]; metal-binding site 406425001246 3-fold/trimer interface [polypeptide binding]; other site 406425001247 MarC family integral membrane protein; Region: MarC; cl00919 406425001248 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 406425001249 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 406425001250 putative active site [active] 406425001251 oxyanion strand; other site 406425001252 catalytic triad [active] 406425001253 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 406425001254 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 406425001255 catalytic residues [active] 406425001256 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 406425001257 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 406425001258 substrate binding site [chemical binding]; other site 406425001259 glutamase interaction surface [polypeptide binding]; other site 406425001260 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 406425001261 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 406425001262 metal binding site [ion binding]; metal-binding site 406425001263 Predicted membrane protein [Function unknown]; Region: COG3671 406425001264 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 406425001265 nucleotide binding site/active site [active] 406425001266 HIT family signature motif; other site 406425001267 catalytic residue [active] 406425001268 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 406425001269 sec-independent translocase; Provisional; Region: tatB; PRK01919 406425001270 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 406425001271 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 406425001272 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 406425001273 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425001274 protein binding site [polypeptide binding]; other site 406425001275 Uncharacterized conserved protein [Function unknown]; Region: COG0327 406425001276 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 406425001277 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 406425001278 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 406425001279 [2Fe-2S] cluster binding site [ion binding]; other site 406425001280 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 406425001281 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 406425001282 Qi binding site; other site 406425001283 intrachain domain interface; other site 406425001284 interchain domain interface [polypeptide binding]; other site 406425001285 heme bH binding site [chemical binding]; other site 406425001286 heme bL binding site [chemical binding]; other site 406425001287 Qo binding site; other site 406425001288 interchain domain interface [polypeptide binding]; other site 406425001289 intrachain domain interface; other site 406425001290 Qi binding site; other site 406425001291 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 406425001292 Qo binding site; other site 406425001293 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 406425001294 stringent starvation protein A; Provisional; Region: sspA; PRK09481 406425001295 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 406425001296 C-terminal domain interface [polypeptide binding]; other site 406425001297 putative GSH binding site (G-site) [chemical binding]; other site 406425001298 dimer interface [polypeptide binding]; other site 406425001299 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 406425001300 dimer interface [polypeptide binding]; other site 406425001301 N-terminal domain interface [polypeptide binding]; other site 406425001302 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 406425001303 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425001304 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425001305 non-specific DNA binding site [nucleotide binding]; other site 406425001306 salt bridge; other site 406425001307 sequence-specific DNA binding site [nucleotide binding]; other site 406425001308 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 406425001309 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425001310 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425001311 substrate binding pocket [chemical binding]; other site 406425001312 membrane-bound complex binding site; other site 406425001313 hinge residues; other site 406425001314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425001315 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 406425001316 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425001317 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425001318 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 406425001319 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 406425001320 RHS Repeat; Region: RHS_repeat; pfam05593 406425001321 RHS Repeat; Region: RHS_repeat; pfam05593 406425001322 RHS Repeat; Region: RHS_repeat; pfam05593 406425001323 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 406425001324 RHS Repeat; Region: RHS_repeat; pfam05593 406425001325 RHS Repeat; Region: RHS_repeat; pfam05593 406425001326 RHS Repeat; Region: RHS_repeat; pfam05593 406425001327 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 406425001328 RHS protein; Region: RHS; pfam03527 406425001329 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 406425001330 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 406425001331 RHS protein; Region: RHS; pfam03527 406425001332 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 406425001333 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 406425001334 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 406425001335 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 406425001336 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 406425001337 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 406425001338 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425001339 TPR motif; other site 406425001340 binding surface 406425001341 Protein of unknown function (DUF770); Region: DUF770; pfam05591 406425001342 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 406425001343 Protein of unknown function (DUF877); Region: DUF877; pfam05943 406425001344 Protein of unknown function (DUF796); Region: DUF796; pfam05638 406425001345 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 406425001346 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 406425001347 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 406425001348 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 406425001349 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 406425001350 Clp amino terminal domain; Region: Clp_N; pfam02861 406425001351 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425001352 Walker A motif; other site 406425001353 ATP binding site [chemical binding]; other site 406425001354 Walker B motif; other site 406425001355 arginine finger; other site 406425001356 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425001357 Walker A motif; other site 406425001358 ATP binding site [chemical binding]; other site 406425001359 Walker B motif; other site 406425001360 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 406425001361 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 406425001362 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 406425001363 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 406425001364 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 406425001365 Merozoite surface protein 1 (MSP1) C-terminus; Region: MSP1_C; pfam07462 406425001366 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 406425001367 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425001368 ligand binding site [chemical binding]; other site 406425001369 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 406425001370 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 406425001371 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 406425001372 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 406425001373 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 406425001374 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 406425001375 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 406425001376 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 406425001377 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 406425001378 Cl binding site [ion binding]; other site 406425001379 oligomer interface [polypeptide binding]; other site 406425001380 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425001381 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425001382 NAD(P) binding site [chemical binding]; other site 406425001383 transcriptional activator TtdR; Provisional; Region: PRK09801 406425001384 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425001385 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425001386 putative effector binding pocket; other site 406425001387 dimerization interface [polypeptide binding]; other site 406425001388 Peptidase family M1; Region: Peptidase_M1; pfam01433 406425001389 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 406425001390 Zn binding site [ion binding]; other site 406425001391 Water Stress and Hypersensitive response; Region: WHy; smart00769 406425001392 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 406425001393 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 406425001394 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 406425001395 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425001396 S-adenosylmethionine binding site [chemical binding]; other site 406425001397 Methyltransferase domain; Region: Methyltransf_32; pfam13679 406425001398 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 406425001399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425001400 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425001401 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425001402 putative substrate translocation pore; other site 406425001403 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425001404 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 406425001405 putative FMN binding site [chemical binding]; other site 406425001406 putative chaperone; Provisional; Region: PRK11678 406425001407 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 406425001408 nucleotide binding site [chemical binding]; other site 406425001409 putative NEF/HSP70 interaction site [polypeptide binding]; other site 406425001410 SBD interface [polypeptide binding]; other site 406425001411 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 406425001412 DNA-binding site [nucleotide binding]; DNA binding site 406425001413 RNA-binding motif; other site 406425001414 amino acid transporter; Region: 2A0306; TIGR00909 406425001415 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 406425001416 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 406425001417 putative active site [active] 406425001418 metal binding site [ion binding]; metal-binding site 406425001419 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 406425001420 Flavoprotein; Region: Flavoprotein; pfam02441 406425001421 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 406425001422 putative GSH binding site [chemical binding]; other site 406425001423 catalytic residues [active] 406425001424 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 406425001425 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425001426 S-adenosylmethionine binding site [chemical binding]; other site 406425001427 peptide chain release factor 1; Validated; Region: prfA; PRK00591 406425001428 This domain is found in peptide chain release factors; Region: PCRF; smart00937 406425001429 RF-1 domain; Region: RF-1; pfam00472 406425001430 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 406425001431 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 406425001432 tRNA; other site 406425001433 putative tRNA binding site [nucleotide binding]; other site 406425001434 putative NADP binding site [chemical binding]; other site 406425001435 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 406425001436 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425001437 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425001438 active site 406425001439 phosphorylation site [posttranslational modification] 406425001440 intermolecular recognition site; other site 406425001441 dimerization interface [polypeptide binding]; other site 406425001442 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425001443 DNA binding site [nucleotide binding] 406425001444 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 406425001445 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 406425001446 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 406425001447 active site 406425001448 Isochorismatase family; Region: Isochorismatase; pfam00857 406425001449 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 406425001450 catalytic triad [active] 406425001451 conserved cis-peptide bond; other site 406425001452 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 406425001453 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 406425001454 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 406425001455 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425001456 Walker A/P-loop; other site 406425001457 ATP binding site [chemical binding]; other site 406425001458 Q-loop/lid; other site 406425001459 ABC transporter signature motif; other site 406425001460 Walker B; other site 406425001461 D-loop; other site 406425001462 H-loop/switch region; other site 406425001463 ABC transporter; Region: ABC_tran_2; pfam12848 406425001464 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 406425001465 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 406425001466 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425001467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425001468 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425001469 dimerization interface [polypeptide binding]; other site 406425001470 substrate binding pocket [chemical binding]; other site 406425001471 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 406425001472 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425001473 putative substrate translocation pore; other site 406425001474 Protein of unknown function (DUF419); Region: DUF419; cl15265 406425001475 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 406425001476 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 406425001477 GTP-binding protein YchF; Reviewed; Region: PRK09601 406425001478 YchF GTPase; Region: YchF; cd01900 406425001479 G1 box; other site 406425001480 GTP/Mg2+ binding site [chemical binding]; other site 406425001481 Switch I region; other site 406425001482 G2 box; other site 406425001483 Switch II region; other site 406425001484 G3 box; other site 406425001485 G4 box; other site 406425001486 G5 box; other site 406425001487 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 406425001488 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 406425001489 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 406425001490 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 406425001491 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 406425001492 dimerization domain [polypeptide binding]; other site 406425001493 dimer interface [polypeptide binding]; other site 406425001494 catalytic residues [active] 406425001495 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 406425001496 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 406425001497 PDZ domain; Region: PDZ_2; pfam13180 406425001498 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 406425001499 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425001500 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 406425001501 ligand binding site [chemical binding]; other site 406425001502 active site 406425001503 UGI interface [polypeptide binding]; other site 406425001504 catalytic site [active] 406425001505 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 406425001506 putative active site [active] 406425001507 putative metal binding residues [ion binding]; other site 406425001508 signature motif; other site 406425001509 putative triphosphate binding site [ion binding]; other site 406425001510 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 406425001511 active site 406425001512 ribulose/triose binding site [chemical binding]; other site 406425001513 phosphate binding site [ion binding]; other site 406425001514 substrate (anthranilate) binding pocket [chemical binding]; other site 406425001515 product (indole) binding pocket [chemical binding]; other site 406425001516 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 406425001517 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 406425001518 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 406425001519 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 406425001520 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 406425001521 glutamine binding [chemical binding]; other site 406425001522 catalytic triad [active] 406425001523 anthranilate synthase component I; Provisional; Region: PRK13565 406425001524 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 406425001525 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 406425001526 phosphoglycolate phosphatase; Provisional; Region: PRK13222 406425001527 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425001528 motif II; other site 406425001529 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 406425001530 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 406425001531 substrate binding site [chemical binding]; other site 406425001532 hexamer interface [polypeptide binding]; other site 406425001533 metal binding site [ion binding]; metal-binding site 406425001534 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 406425001535 MltA specific insert domain; Region: MltA; smart00925 406425001536 3D domain; Region: 3D; pfam06725 406425001537 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 406425001538 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 406425001539 active site 406425001540 AMP binding site [chemical binding]; other site 406425001541 homodimer interface [polypeptide binding]; other site 406425001542 acyl-activating enzyme (AAE) consensus motif; other site 406425001543 CoA binding site [chemical binding]; other site 406425001544 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425001545 CoenzymeA binding site [chemical binding]; other site 406425001546 subunit interaction site [polypeptide binding]; other site 406425001547 PHB binding site; other site 406425001548 enoyl-CoA hydratase; Provisional; Region: PRK08140 406425001549 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425001550 substrate binding site [chemical binding]; other site 406425001551 oxyanion hole (OAH) forming residues; other site 406425001552 trimer interface [polypeptide binding]; other site 406425001553 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 406425001554 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425001555 dimer interface [polypeptide binding]; other site 406425001556 active site 406425001557 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 406425001558 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425001559 NAD(P) binding site [chemical binding]; other site 406425001560 catalytic residues [active] 406425001561 enoyl-CoA hydratase; Provisional; Region: PRK05862 406425001562 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425001563 substrate binding site [chemical binding]; other site 406425001564 oxyanion hole (OAH) forming residues; other site 406425001565 trimer interface [polypeptide binding]; other site 406425001566 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 406425001567 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 406425001568 putative [4Fe-4S] binding site [ion binding]; other site 406425001569 putative molybdopterin cofactor binding site [chemical binding]; other site 406425001570 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 406425001571 putative molybdopterin cofactor binding site; other site 406425001572 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 406425001573 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 406425001574 acyl-activating enzyme (AAE) consensus motif; other site 406425001575 putative AMP binding site [chemical binding]; other site 406425001576 putative active site [active] 406425001577 putative CoA binding site [chemical binding]; other site 406425001578 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425001579 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425001580 trimer interface [polypeptide binding]; other site 406425001581 eyelet of channel; other site 406425001582 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 406425001583 diiron binding motif [ion binding]; other site 406425001584 cell division protein MraZ; Reviewed; Region: PRK00326 406425001585 MraZ protein; Region: MraZ; pfam02381 406425001586 MraZ protein; Region: MraZ; pfam02381 406425001587 MraW methylase family; Region: Methyltransf_5; cl17771 406425001588 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 406425001589 Cell division protein FtsL; Region: FtsL; cl11433 406425001590 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 406425001591 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 406425001592 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 406425001593 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 406425001594 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001595 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001596 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 406425001597 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 406425001598 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001599 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001600 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 406425001601 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 406425001602 Mg++ binding site [ion binding]; other site 406425001603 putative catalytic motif [active] 406425001604 putative substrate binding site [chemical binding]; other site 406425001605 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 406425001606 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001607 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001608 cell division protein FtsW; Region: ftsW; TIGR02614 406425001609 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 406425001610 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 406425001611 active site 406425001612 homodimer interface [polypeptide binding]; other site 406425001613 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 406425001614 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 406425001615 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001616 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001617 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 406425001618 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 406425001619 ATP-grasp domain; Region: ATP-grasp_4; cl17255 406425001620 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 406425001621 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 406425001622 Cell division protein FtsQ; Region: FtsQ; pfam03799 406425001623 cell division protein FtsA; Region: ftsA; TIGR01174 406425001624 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 406425001625 nucleotide binding site [chemical binding]; other site 406425001626 Cell division protein FtsA; Region: FtsA; pfam14450 406425001627 cell division protein FtsZ; Validated; Region: PRK09330 406425001628 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 406425001629 nucleotide binding site [chemical binding]; other site 406425001630 SulA interaction site; other site 406425001631 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 406425001632 catalytic triad [active] 406425001633 dimer interface [polypeptide binding]; other site 406425001634 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 406425001635 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 406425001636 Protein of unknown function (DUF721); Region: DUF721; pfam05258 406425001637 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 406425001638 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 406425001639 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 406425001640 SEC-C motif; Region: SEC-C; pfam02810 406425001641 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 406425001642 heterotetramer interface [polypeptide binding]; other site 406425001643 active site pocket [active] 406425001644 cleavage site 406425001645 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 406425001646 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425001647 Walker A motif; other site 406425001648 ATP binding site [chemical binding]; other site 406425001649 Walker B motif; other site 406425001650 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 406425001651 active site 406425001652 8-oxo-dGMP binding site [chemical binding]; other site 406425001653 nudix motif; other site 406425001654 metal binding site [ion binding]; metal-binding site 406425001655 Domain of unknown function (DUF329); Region: DUF329; pfam03884 406425001656 hypothetical protein; Provisional; Region: PRK05287 406425001657 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 406425001658 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 406425001659 CoA-binding site [chemical binding]; other site 406425001660 ATP-binding [chemical binding]; other site 406425001661 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 406425001662 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 406425001663 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 406425001664 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 406425001665 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 406425001666 Type II/IV secretion system protein; Region: T2SE; pfam00437 406425001667 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 406425001668 Walker A motif; other site 406425001669 ATP binding site [chemical binding]; other site 406425001670 Walker B motif; other site 406425001671 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 406425001672 Domain of unknown function DUF21; Region: DUF21; pfam01595 406425001673 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 406425001674 Transporter associated domain; Region: CorC_HlyC; smart01091 406425001675 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 406425001676 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 406425001677 substrate binding pocket [chemical binding]; other site 406425001678 chain length determination region; other site 406425001679 substrate-Mg2+ binding site; other site 406425001680 catalytic residues [active] 406425001681 aspartate-rich region 1; other site 406425001682 active site lid residues [active] 406425001683 aspartate-rich region 2; other site 406425001684 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 406425001685 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 406425001686 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 406425001687 GTPase CgtA; Reviewed; Region: obgE; PRK12299 406425001688 GTP1/OBG; Region: GTP1_OBG; pfam01018 406425001689 Obg GTPase; Region: Obg; cd01898 406425001690 G1 box; other site 406425001691 GTP/Mg2+ binding site [chemical binding]; other site 406425001692 Switch I region; other site 406425001693 G2 box; other site 406425001694 G3 box; other site 406425001695 Switch II region; other site 406425001696 G4 box; other site 406425001697 G5 box; other site 406425001698 gamma-glutamyl kinase; Provisional; Region: PRK05429 406425001699 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 406425001700 nucleotide binding site [chemical binding]; other site 406425001701 homotetrameric interface [polypeptide binding]; other site 406425001702 putative phosphate binding site [ion binding]; other site 406425001703 putative allosteric binding site; other site 406425001704 PUA domain; Region: PUA; pfam01472 406425001705 CNP1-like family; Region: CNP1; pfam08750 406425001706 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 406425001707 putative active site [active] 406425001708 Ap4A binding site [chemical binding]; other site 406425001709 nudix motif; other site 406425001710 putative metal binding site [ion binding]; other site 406425001711 prolyl-tRNA synthetase; Provisional; Region: PRK09194 406425001712 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 406425001713 dimer interface [polypeptide binding]; other site 406425001714 motif 1; other site 406425001715 active site 406425001716 motif 2; other site 406425001717 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 406425001718 putative deacylase active site [active] 406425001719 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 406425001720 active site 406425001721 motif 3; other site 406425001722 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 406425001723 anticodon binding site; other site 406425001724 MarC family integral membrane protein; Region: MarC; cl00919 406425001725 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425001726 active site 406425001727 signal recognition particle protein; Provisional; Region: PRK10867 406425001728 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 406425001729 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 406425001730 P loop; other site 406425001731 GTP binding site [chemical binding]; other site 406425001732 Signal peptide binding domain; Region: SRP_SPB; pfam02978 406425001733 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 406425001734 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 406425001735 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 406425001736 amidase catalytic site [active] 406425001737 Zn binding residues [ion binding]; other site 406425001738 substrate binding site [chemical binding]; other site 406425001739 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 406425001740 ATP cone domain; Region: ATP-cone; pfam03477 406425001741 Class I ribonucleotide reductase; Region: RNR_I; cd01679 406425001742 active site 406425001743 dimer interface [polypeptide binding]; other site 406425001744 catalytic residues [active] 406425001745 effector binding site; other site 406425001746 R2 peptide binding site; other site 406425001747 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 406425001748 dimer interface [polypeptide binding]; other site 406425001749 putative radical transfer pathway; other site 406425001750 diiron center [ion binding]; other site 406425001751 tyrosyl radical; other site 406425001752 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 406425001753 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425001754 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 406425001755 substrate binding site [chemical binding]; other site 406425001756 ATP binding site [chemical binding]; other site 406425001757 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 406425001758 dimer interface [polypeptide binding]; other site 406425001759 catalytic triad [active] 406425001760 peroxidatic and resolving cysteines [active] 406425001761 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 406425001762 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 406425001763 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 406425001764 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425001765 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425001766 S-adenosylmethionine binding site [chemical binding]; other site 406425001767 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 406425001768 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425001769 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 406425001770 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 406425001771 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 406425001772 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 406425001773 carboxyltransferase (CT) interaction site; other site 406425001774 biotinylation site [posttranslational modification]; other site 406425001775 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 406425001776 Dehydroquinase class II; Region: DHquinase_II; pfam01220 406425001777 active site 406425001778 trimer interface [polypeptide binding]; other site 406425001779 dimer interface [polypeptide binding]; other site 406425001780 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 406425001781 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425001782 catalytic residues [active] 406425001783 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 406425001784 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 406425001785 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001786 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001787 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 406425001788 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425001789 Exoribonuclease R [Transcription]; Region: VacB; COG0557 406425001790 RNB domain; Region: RNB; pfam00773 406425001791 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 406425001792 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 406425001793 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 406425001794 shikimate binding site; other site 406425001795 NAD(P) binding site [chemical binding]; other site 406425001796 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 406425001797 Transglycosylase; Region: Transgly; cl17702 406425001798 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 406425001799 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 406425001800 EF-hand domain pair; Region: EF_hand_5; pfam13499 406425001801 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425001802 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425001803 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425001804 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 406425001805 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 406425001806 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 406425001807 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 406425001808 active site 406425001809 intersubunit interface [polypeptide binding]; other site 406425001810 catalytic residue [active] 406425001811 short chain dehydrogenase; Provisional; Region: PRK07063 406425001812 classical (c) SDRs; Region: SDR_c; cd05233 406425001813 NAD(P) binding site [chemical binding]; other site 406425001814 active site 406425001815 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 406425001816 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 406425001817 ligand binding site [chemical binding]; other site 406425001818 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 406425001819 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425001820 Walker A/P-loop; other site 406425001821 ATP binding site [chemical binding]; other site 406425001822 Q-loop/lid; other site 406425001823 ABC transporter signature motif; other site 406425001824 Walker B; other site 406425001825 D-loop; other site 406425001826 H-loop/switch region; other site 406425001827 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425001828 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425001829 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425001830 TM-ABC transporter signature motif; other site 406425001831 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425001832 classical (c) SDRs; Region: SDR_c; cd05233 406425001833 NAD(P) binding site [chemical binding]; other site 406425001834 active site 406425001835 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 406425001836 active site 406425001837 catalytic residues [active] 406425001838 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 406425001839 active site 406425001840 dimer interface [polypeptide binding]; other site 406425001841 Competence-damaged protein; Region: CinA; pfam02464 406425001842 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 406425001843 tetramer interfaces [polypeptide binding]; other site 406425001844 binuclear metal-binding site [ion binding]; other site 406425001845 thiamine monophosphate kinase; Provisional; Region: PRK05731 406425001846 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 406425001847 ATP binding site [chemical binding]; other site 406425001848 dimerization interface [polypeptide binding]; other site 406425001849 malic enzyme; Reviewed; Region: PRK12862 406425001850 Malic enzyme, N-terminal domain; Region: malic; pfam00390 406425001851 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 406425001852 putative NAD(P) binding site [chemical binding]; other site 406425001853 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 406425001854 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 406425001855 active site 406425001856 barstar interaction site; other site 406425001857 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 406425001858 putative RNAase interaction site [polypeptide binding]; other site 406425001859 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 406425001860 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 406425001861 putative dimer interface [polypeptide binding]; other site 406425001862 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425001863 spermidine synthase; Provisional; Region: PRK00811 406425001864 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425001865 transketolase; Reviewed; Region: PRK12753 406425001866 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 406425001867 TPP-binding site [chemical binding]; other site 406425001868 dimer interface [polypeptide binding]; other site 406425001869 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425001870 PYR/PP interface [polypeptide binding]; other site 406425001871 dimer interface [polypeptide binding]; other site 406425001872 TPP binding site [chemical binding]; other site 406425001873 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425001874 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 406425001875 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 406425001876 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 406425001877 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425001878 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425001879 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425001880 dimerization interface [polypeptide binding]; other site 406425001881 substrate binding pocket [chemical binding]; other site 406425001882 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 406425001883 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 406425001884 NADP binding site [chemical binding]; other site 406425001885 homodimer interface [polypeptide binding]; other site 406425001886 active site 406425001887 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 406425001888 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 406425001889 putative NAD(P) binding site [chemical binding]; other site 406425001890 catalytic Zn binding site [ion binding]; other site 406425001891 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425001892 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425001893 putative substrate translocation pore; other site 406425001894 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 406425001895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425001896 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 406425001897 dimerization interface [polypeptide binding]; other site 406425001898 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425001899 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425001900 DNA-binding site [nucleotide binding]; DNA binding site 406425001901 FCD domain; Region: FCD; pfam07729 406425001902 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 406425001903 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425001904 allantoicase; Provisional; Region: PRK13257 406425001905 Allantoicase repeat; Region: Allantoicase; pfam03561 406425001906 Allantoicase repeat; Region: Allantoicase; pfam03561 406425001907 ureidoglycolate hydrolase; Provisional; Region: PRK13395 406425001908 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 406425001909 ferric uptake regulator; Provisional; Region: fur; PRK09462 406425001910 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 406425001911 metal binding site 2 [ion binding]; metal-binding site 406425001912 putative DNA binding helix; other site 406425001913 metal binding site 1 [ion binding]; metal-binding site 406425001914 dimer interface [polypeptide binding]; other site 406425001915 structural Zn2+ binding site [ion binding]; other site 406425001916 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 406425001917 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 406425001918 dihydrodipicolinate reductase; Provisional; Region: PRK00048 406425001919 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 406425001920 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 406425001921 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 406425001922 TolR protein; Region: tolR; TIGR02801 406425001923 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 406425001924 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 406425001925 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 406425001926 HIGH motif; other site 406425001927 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 406425001928 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425001929 active site 406425001930 KMSKS motif; other site 406425001931 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 406425001932 tRNA binding surface [nucleotide binding]; other site 406425001933 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 406425001934 Lipopolysaccharide-assembly; Region: LptE; cl01125 406425001935 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 406425001936 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 406425001937 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 406425001938 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 406425001939 putative catalytic cysteine [active] 406425001940 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 406425001941 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425001942 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425001943 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425001944 putative active site [active] 406425001945 phosphogluconate dehydratase; Validated; Region: PRK09054 406425001946 6-phosphogluconate dehydratase; Region: edd; TIGR01196 406425001947 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 406425001948 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 406425001949 active site 406425001950 intersubunit interface [polypeptide binding]; other site 406425001951 catalytic residue [active] 406425001952 fructuronate transporter; Provisional; Region: PRK10034; cl15264 406425001953 GntP family permease; Region: GntP_permease; pfam02447 406425001954 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 406425001955 ATP-binding site [chemical binding]; other site 406425001956 Gluconate-6-phosphate binding site [chemical binding]; other site 406425001957 Shikimate kinase; Region: SKI; pfam01202 406425001958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425001959 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 406425001960 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425001961 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425001962 adenylosuccinate lyase; Provisional; Region: PRK09285 406425001963 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 406425001964 tetramer interface [polypeptide binding]; other site 406425001965 active site 406425001966 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425001967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425001968 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425001969 dimerization interface [polypeptide binding]; other site 406425001970 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 406425001971 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 406425001972 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 406425001973 NAD(P) binding site [chemical binding]; other site 406425001974 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425001975 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425001976 substrate binding pocket [chemical binding]; other site 406425001977 membrane-bound complex binding site; other site 406425001978 hinge residues; other site 406425001979 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425001980 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425001981 dimer interface [polypeptide binding]; other site 406425001982 conserved gate region; other site 406425001983 putative PBP binding loops; other site 406425001984 ABC-ATPase subunit interface; other site 406425001985 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425001986 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425001987 dimer interface [polypeptide binding]; other site 406425001988 conserved gate region; other site 406425001989 putative PBP binding loops; other site 406425001990 ABC-ATPase subunit interface; other site 406425001991 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425001992 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425001993 Walker A/P-loop; other site 406425001994 ATP binding site [chemical binding]; other site 406425001995 Q-loop/lid; other site 406425001996 ABC transporter signature motif; other site 406425001997 Walker B; other site 406425001998 D-loop; other site 406425001999 H-loop/switch region; other site 406425002000 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425002001 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 406425002002 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 406425002003 Autotransporter beta-domain; Region: Autotransporter; smart00869 406425002004 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 406425002005 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 406425002006 putative dimer interface [polypeptide binding]; other site 406425002007 putative active site [active] 406425002008 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 406425002009 active site 406425002010 substrate binding pocket [chemical binding]; other site 406425002011 dimer interface [polypeptide binding]; other site 406425002012 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 406425002013 OsmC-like protein; Region: OsmC; cl00767 406425002014 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 406425002015 23S rRNA interface [nucleotide binding]; other site 406425002016 L3 interface [polypeptide binding]; other site 406425002017 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 406425002018 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 406425002019 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 406425002020 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 406425002021 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 406425002022 active site 406425002023 HIGH motif; other site 406425002024 dimer interface [polypeptide binding]; other site 406425002025 KMSKS motif; other site 406425002026 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425002027 RNA binding surface [nucleotide binding]; other site 406425002028 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 406425002029 putative active site [active] 406425002030 dimerization interface [polypeptide binding]; other site 406425002031 putative tRNAtyr binding site [nucleotide binding]; other site 406425002032 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425002033 catalytic core [active] 406425002034 Putative ParB-like nuclease; Region: ParBc_2; cl17538 406425002035 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 406425002036 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 406425002037 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425002038 Walker A motif; other site 406425002039 ATP binding site [chemical binding]; other site 406425002040 Walker B motif; other site 406425002041 arginine finger; other site 406425002042 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 406425002043 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 406425002044 RuvA N terminal domain; Region: RuvA_N; pfam01330 406425002045 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 406425002046 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 406425002047 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 406425002048 active site 406425002049 putative DNA-binding cleft [nucleotide binding]; other site 406425002050 dimer interface [polypeptide binding]; other site 406425002051 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 406425002052 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 406425002053 purine monophosphate binding site [chemical binding]; other site 406425002054 dimer interface [polypeptide binding]; other site 406425002055 putative catalytic residues [active] 406425002056 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 406425002057 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 406425002058 DNA-binding protein Fis; Provisional; Region: PRK01905 406425002059 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 406425002060 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 406425002061 FMN binding site [chemical binding]; other site 406425002062 active site 406425002063 catalytic residues [active] 406425002064 substrate binding site [chemical binding]; other site 406425002065 hypothetical protein; Provisional; Region: PRK06996 406425002066 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425002067 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 406425002068 proline aminopeptidase P II; Provisional; Region: PRK10879 406425002069 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 406425002070 active site 406425002071 putative glutathione S-transferase; Provisional; Region: PRK10357 406425002072 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 406425002073 putative C-terminal domain interface [polypeptide binding]; other site 406425002074 putative GSH binding site (G-site) [chemical binding]; other site 406425002075 putative dimer interface [polypeptide binding]; other site 406425002076 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 406425002077 dimer interface [polypeptide binding]; other site 406425002078 N-terminal domain interface [polypeptide binding]; other site 406425002079 putative substrate binding pocket (H-site) [chemical binding]; other site 406425002080 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 406425002081 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 406425002082 active site 406425002083 FMN binding site [chemical binding]; other site 406425002084 substrate binding site [chemical binding]; other site 406425002085 3Fe-4S cluster binding site [ion binding]; other site 406425002086 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 406425002087 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 406425002088 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 406425002089 nudix motif; other site 406425002090 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 406425002091 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 406425002092 ligand binding site [chemical binding]; other site 406425002093 homodimer interface [polypeptide binding]; other site 406425002094 NAD(P) binding site [chemical binding]; other site 406425002095 trimer interface B [polypeptide binding]; other site 406425002096 trimer interface A [polypeptide binding]; other site 406425002097 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 406425002098 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 406425002099 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 406425002100 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425002101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425002102 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 406425002103 putative substrate binding pocket [chemical binding]; other site 406425002104 putative dimerization interface [polypeptide binding]; other site 406425002105 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 406425002106 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425002107 putative active site [active] 406425002108 catalytic triad [active] 406425002109 putative dimer interface [polypeptide binding]; other site 406425002110 Predicted transcriptional regulator [Transcription]; Region: COG2378 406425002111 HTH domain; Region: HTH_11; pfam08279 406425002112 WYL domain; Region: WYL; pfam13280 406425002113 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 406425002114 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425002115 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425002116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 406425002117 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 406425002118 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 406425002119 Site-specific recombinase; Region: SpecificRecomb; pfam10136 406425002120 Protein of unknown function (DUF330); Region: DUF330; pfam03886 406425002121 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 406425002122 mce related protein; Region: MCE; pfam02470 406425002123 mce related protein; Region: MCE; pfam02470 406425002124 Paraquat-inducible protein A; Region: PqiA; pfam04403 406425002125 Paraquat-inducible protein A; Region: PqiA; pfam04403 406425002126 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 406425002127 YceI-like domain; Region: YceI; smart00867 406425002128 Uncharacterized conserved protein [Function unknown]; Region: COG2353 406425002129 citrate-proton symporter; Provisional; Region: PRK15075 406425002130 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002131 putative substrate translocation pore; other site 406425002132 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 406425002133 C-terminal peptidase (prc); Region: prc; TIGR00225 406425002134 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 406425002135 protein binding site [polypeptide binding]; other site 406425002136 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 406425002137 Catalytic dyad [active] 406425002138 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 406425002139 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 406425002140 Protein export membrane protein; Region: SecD_SecF; pfam02355 406425002141 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 406425002142 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 406425002143 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 406425002144 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 406425002145 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 406425002146 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 406425002147 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 406425002148 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 406425002149 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 406425002150 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 406425002151 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 406425002152 ssDNA binding site; other site 406425002153 generic binding surface II; other site 406425002154 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425002155 ATP binding site [chemical binding]; other site 406425002156 putative Mg++ binding site [ion binding]; other site 406425002157 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425002158 nucleotide binding region [chemical binding]; other site 406425002159 ATP-binding site [chemical binding]; other site 406425002160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425002161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425002162 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 406425002163 dimerization interface [polypeptide binding]; other site 406425002164 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 406425002165 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 406425002166 dimer interface [polypeptide binding]; other site 406425002167 active site 406425002168 heme binding site [chemical binding]; other site 406425002169 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 406425002170 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 406425002171 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 406425002172 dimerization interface [polypeptide binding]; other site 406425002173 DPS ferroxidase diiron center [ion binding]; other site 406425002174 ion pore; other site 406425002175 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 406425002176 UbiA prenyltransferase family; Region: UbiA; pfam01040 406425002177 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 406425002178 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 406425002179 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 406425002180 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425002181 catalytic residue [active] 406425002182 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 406425002183 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 406425002184 Cysteine-rich domain; Region: CCG; pfam02754 406425002185 Cysteine-rich domain; Region: CCG; pfam02754 406425002186 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 406425002187 FAD binding domain; Region: FAD_binding_4; pfam01565 406425002188 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 406425002189 FAD binding domain; Region: FAD_binding_4; pfam01565 406425002190 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425002191 FAD binding domain; Region: FAD_binding_4; pfam01565 406425002192 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 406425002193 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 406425002194 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 406425002195 heme-binding site [chemical binding]; other site 406425002196 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 406425002197 FAD binding pocket [chemical binding]; other site 406425002198 FAD binding motif [chemical binding]; other site 406425002199 phosphate binding motif [ion binding]; other site 406425002200 beta-alpha-beta structure motif; other site 406425002201 NAD binding pocket [chemical binding]; other site 406425002202 Heme binding pocket [chemical binding]; other site 406425002203 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 406425002204 putative active site [active] 406425002205 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 406425002206 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 406425002207 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 406425002208 protease TldD; Provisional; Region: tldD; PRK10735 406425002209 nitrilase; Region: PLN02798 406425002210 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 406425002211 putative active site [active] 406425002212 catalytic triad [active] 406425002213 dimer interface [polypeptide binding]; other site 406425002214 TIGR02099 family protein; Region: TIGR02099 406425002215 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 406425002216 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 406425002217 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 406425002218 metal binding triad; other site 406425002219 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 406425002220 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 406425002221 metal binding triad; other site 406425002222 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 406425002223 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 406425002224 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 406425002225 Walker A/P-loop; other site 406425002226 ATP binding site [chemical binding]; other site 406425002227 Q-loop/lid; other site 406425002228 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 406425002229 ABC transporter signature motif; other site 406425002230 Walker B; other site 406425002231 D-loop; other site 406425002232 H-loop/switch region; other site 406425002233 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 406425002234 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 406425002235 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 406425002236 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 406425002237 ferrochelatase; Reviewed; Region: hemH; PRK00035 406425002238 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 406425002239 C-terminal domain interface [polypeptide binding]; other site 406425002240 active site 406425002241 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 406425002242 active site 406425002243 N-terminal domain interface [polypeptide binding]; other site 406425002244 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425002245 RNA binding surface [nucleotide binding]; other site 406425002246 GrpE; Region: GrpE; pfam01025 406425002247 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 406425002248 dimer interface [polypeptide binding]; other site 406425002249 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 406425002250 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425002251 catalytic residues [active] 406425002252 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 406425002253 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 406425002254 nucleotide binding site [chemical binding]; other site 406425002255 chaperone protein DnaJ; Provisional; Region: PRK10767 406425002256 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 406425002257 HSP70 interaction site [polypeptide binding]; other site 406425002258 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 406425002259 Zn binding sites [ion binding]; other site 406425002260 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 406425002261 dimer interface [polypeptide binding]; other site 406425002262 chorismate binding enzyme; Region: Chorismate_bind; cl10555 406425002263 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 406425002264 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 406425002265 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 406425002266 homodimer interface [polypeptide binding]; other site 406425002267 substrate-cofactor binding pocket; other site 406425002268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425002269 catalytic residue [active] 406425002270 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 406425002271 oligomerization interface [polypeptide binding]; other site 406425002272 active site 406425002273 metal binding site [ion binding]; metal-binding site 406425002274 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 406425002275 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 406425002276 Substrate-binding site [chemical binding]; other site 406425002277 Substrate specificity [chemical binding]; other site 406425002278 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 406425002279 catalytic center binding site [active] 406425002280 ATP binding site [chemical binding]; other site 406425002281 poly(A) polymerase; Region: pcnB; TIGR01942 406425002282 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 406425002283 active site 406425002284 NTP binding site [chemical binding]; other site 406425002285 metal binding triad [ion binding]; metal-binding site 406425002286 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 406425002287 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 406425002288 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 406425002289 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 406425002290 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 406425002291 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 406425002292 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 406425002293 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 406425002294 dimerization interface [polypeptide binding]; other site 406425002295 putative ATP binding site [chemical binding]; other site 406425002296 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002297 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425002298 putative substrate translocation pore; other site 406425002299 tetracycline repressor protein TetR; Provisional; Region: PRK13756 406425002300 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425002301 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 406425002302 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 406425002303 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 406425002304 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 406425002305 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425002306 ATP binding site [chemical binding]; other site 406425002307 Mg2+ binding site [ion binding]; other site 406425002308 G-X-G motif; other site 406425002309 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 406425002310 ATP binding site [chemical binding]; other site 406425002311 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 406425002312 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 406425002313 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 406425002314 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 406425002315 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425002316 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 406425002317 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 406425002318 Substrate binding site; other site 406425002319 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 406425002320 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 406425002321 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 406425002322 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 406425002323 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425002324 polysaccharide export protein Wza; Provisional; Region: PRK15078 406425002325 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425002326 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 406425002327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425002328 FtsJ-like methyltransferase; Region: FtsJ; cl17430 406425002329 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425002330 S-adenosylmethionine binding site [chemical binding]; other site 406425002331 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 406425002332 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425002333 binding surface 406425002334 TPR motif; other site 406425002335 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425002336 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 406425002337 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425002338 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425002339 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 406425002340 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 406425002341 Walker A/P-loop; other site 406425002342 ATP binding site [chemical binding]; other site 406425002343 Q-loop/lid; other site 406425002344 ABC transporter signature motif; other site 406425002345 Walker B; other site 406425002346 D-loop; other site 406425002347 H-loop/switch region; other site 406425002348 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 406425002349 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 406425002350 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 406425002351 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 406425002352 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 406425002353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002354 NAD(P) binding site [chemical binding]; other site 406425002355 active site 406425002356 Sulfatase; Region: Sulfatase; pfam00884 406425002357 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 406425002358 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 406425002359 active site 406425002360 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 406425002361 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 406425002362 Methyltransferase domain; Region: Methyltransf_12; pfam08242 406425002363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002364 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 406425002365 Enoylreductase; Region: PKS_ER; smart00829 406425002366 NAD(P) binding site [chemical binding]; other site 406425002367 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 406425002368 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 406425002369 putative NADP binding site [chemical binding]; other site 406425002370 active site 406425002371 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 406425002372 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: PRK13187 406425002373 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 406425002374 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 406425002375 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 406425002376 substrate-cofactor binding pocket; other site 406425002377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425002378 catalytic residue [active] 406425002379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 406425002380 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 406425002381 ligand-binding site [chemical binding]; other site 406425002382 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 406425002383 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 406425002384 putative active site [active] 406425002385 putative dimer interface [polypeptide binding]; other site 406425002386 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 406425002387 Cupin; Region: Cupin_6; pfam12852 406425002388 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425002389 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425002390 yiaA/B two helix domain; Region: YiaAB; pfam05360 406425002391 yiaA/B two helix domain; Region: YiaAB; pfam05360 406425002392 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 406425002393 PemK-like protein; Region: PemK; pfam02452 406425002394 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 406425002395 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425002396 non-specific DNA binding site [nucleotide binding]; other site 406425002397 salt bridge; other site 406425002398 sequence-specific DNA binding site [nucleotide binding]; other site 406425002399 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 406425002400 Tetratricopeptide repeat; Region: TPR_6; pfam13174 406425002401 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 406425002402 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425002403 ligand binding site [chemical binding]; other site 406425002404 translocation protein TolB; Provisional; Region: tolB; PRK02889 406425002405 TolB amino-terminal domain; Region: TolB_N; pfam04052 406425002406 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 406425002407 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 406425002408 TolA protein; Region: tolA_full; TIGR02794 406425002409 TonB C terminal; Region: TonB_2; pfam13103 406425002410 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 406425002411 TolR protein; Region: tolR; TIGR02801 406425002412 TolQ protein; Region: tolQ; TIGR02796 406425002413 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 406425002414 active site 406425002415 malonic semialdehyde reductase; Provisional; Region: PRK10538 406425002416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002417 NAD(P) binding site [chemical binding]; other site 406425002418 active site 406425002419 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 406425002420 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 406425002421 dimer interface [polypeptide binding]; other site 406425002422 active site 406425002423 glycine-pyridoxal phosphate binding site [chemical binding]; other site 406425002424 folate binding site [chemical binding]; other site 406425002425 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 406425002426 ATP cone domain; Region: ATP-cone; pfam03477 406425002427 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 406425002428 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 406425002429 Predicted membrane protein [Function unknown]; Region: COG5393 406425002430 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 406425002431 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 406425002432 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 406425002433 dimer interface [polypeptide binding]; other site 406425002434 decamer (pentamer of dimers) interface [polypeptide binding]; other site 406425002435 catalytic triad [active] 406425002436 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 406425002437 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425002438 FAD binding site [chemical binding]; other site 406425002439 substrate binding pocket [chemical binding]; other site 406425002440 catalytic base [active] 406425002441 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425002442 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425002443 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425002444 Uncharacterized conserved protein [Function unknown]; Region: COG3791 406425002445 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 406425002446 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 406425002447 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425002448 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425002449 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 406425002450 benzoate transport; Region: 2A0115; TIGR00895 406425002451 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002452 putative substrate translocation pore; other site 406425002453 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002454 putative substrate translocation pore; other site 406425002455 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 406425002456 fumarylacetoacetase; Region: PLN02856 406425002457 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 406425002458 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425002459 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425002460 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425002461 putative active site [active] 406425002462 putative NTP binding site [chemical binding]; other site 406425002463 putative nucleic acid binding site [nucleotide binding]; other site 406425002464 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425002465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002466 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425002467 putative substrate translocation pore; other site 406425002468 MFS transport protein AraJ; Provisional; Region: PRK10091 406425002469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002470 putative substrate translocation pore; other site 406425002471 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 406425002472 putative FMN binding site [chemical binding]; other site 406425002473 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 406425002474 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 406425002475 putative ligand binding site [chemical binding]; other site 406425002476 putative NAD binding site [chemical binding]; other site 406425002477 catalytic site [active] 406425002478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425002479 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425002480 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425002481 putative effector binding pocket; other site 406425002482 dimerization interface [polypeptide binding]; other site 406425002483 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 406425002484 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425002485 catalytic residue [active] 406425002486 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425002487 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425002488 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425002489 EamA-like transporter family; Region: EamA; pfam00892 406425002490 Homeodomain-like domain; Region: HTH_23; cl17451 406425002491 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425002492 Integrase core domain; Region: rve; pfam00665 406425002493 Integrase core domain; Region: rve_3; pfam13683 406425002494 RES domain; Region: RES; pfam08808 406425002495 major facilitator superfamily transporter; Provisional; Region: PRK05122 406425002496 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002497 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 406425002498 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425002499 catalytic loop [active] 406425002500 iron binding site [ion binding]; other site 406425002501 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425002502 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 406425002503 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 406425002504 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 406425002505 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425002506 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 406425002507 XdhC Rossmann domain; Region: XdhC_C; pfam13478 406425002508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 406425002509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425002510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425002511 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425002512 dimerization interface [polypeptide binding]; other site 406425002513 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 406425002514 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 406425002515 putative catalytic residue [active] 406425002516 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 406425002517 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 406425002518 BON domain; Region: BON; pfam04972 406425002519 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 406425002520 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 406425002521 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 406425002522 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 406425002523 active site 406425002524 NTP binding site [chemical binding]; other site 406425002525 metal binding triad [ion binding]; metal-binding site 406425002526 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 406425002527 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425002528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002529 putative substrate translocation pore; other site 406425002530 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 406425002531 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 406425002532 catalytic residues [active] 406425002533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 406425002534 YheO-like PAS domain; Region: PAS_6; pfam08348 406425002535 HTH domain; Region: HTH_22; pfam13309 406425002536 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 406425002537 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 406425002538 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425002539 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425002540 substrate binding pocket [chemical binding]; other site 406425002541 membrane-bound complex binding site; other site 406425002542 hinge residues; other site 406425002543 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425002544 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425002545 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425002546 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 406425002547 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 406425002548 RNA polymerase sigma factor; Provisional; Region: PRK12511 406425002549 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425002550 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 406425002551 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 406425002552 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 406425002553 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 406425002554 putative hydrophobic ligand binding site [chemical binding]; other site 406425002555 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 406425002556 oligomerisation interface [polypeptide binding]; other site 406425002557 mobile loop; other site 406425002558 roof hairpin; other site 406425002559 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 406425002560 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 406425002561 ring oligomerisation interface [polypeptide binding]; other site 406425002562 ATP/Mg binding site [chemical binding]; other site 406425002563 stacking interactions; other site 406425002564 hinge regions; other site 406425002565 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 406425002566 dimer interface [polypeptide binding]; other site 406425002567 substrate binding site [chemical binding]; other site 406425002568 ATP binding site [chemical binding]; other site 406425002569 Rubredoxin [Energy production and conversion]; Region: COG1773 406425002570 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 406425002571 iron binding site [ion binding]; other site 406425002572 hypothetical protein; Validated; Region: PRK00228 406425002573 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 406425002574 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425002575 active site 406425002576 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 406425002577 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 406425002578 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 406425002579 dihydroorotase; Provisional; Region: PRK07627 406425002580 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425002581 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 406425002582 active site 406425002583 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 406425002584 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 406425002585 putative acyl-acceptor binding pocket; other site 406425002586 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 406425002587 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 406425002588 active site 406425002589 metal binding site [ion binding]; metal-binding site 406425002590 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 406425002591 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 406425002592 NAD binding site [chemical binding]; other site 406425002593 substrate binding site [chemical binding]; other site 406425002594 homodimer interface [polypeptide binding]; other site 406425002595 active site 406425002596 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 406425002597 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 406425002598 substrate binding site; other site 406425002599 tetramer interface; other site 406425002600 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 406425002601 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 406425002602 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 406425002603 NADP binding site [chemical binding]; other site 406425002604 active site 406425002605 putative substrate binding site [chemical binding]; other site 406425002606 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 406425002607 Ligand binding site; other site 406425002608 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 406425002609 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 406425002610 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 406425002611 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 406425002612 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 406425002613 Walker A/P-loop; other site 406425002614 ATP binding site [chemical binding]; other site 406425002615 Q-loop/lid; other site 406425002616 ABC transporter signature motif; other site 406425002617 Walker B; other site 406425002618 D-loop; other site 406425002619 H-loop/switch region; other site 406425002620 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 406425002621 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 406425002622 Probable Catalytic site; other site 406425002623 metal-binding site 406425002624 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425002625 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 406425002626 Probable Catalytic site; other site 406425002627 metal-binding site 406425002628 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 406425002629 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 406425002630 Substrate binding site; other site 406425002631 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 406425002632 Methyltransferase domain; Region: Methyltransf_24; pfam13578 406425002633 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425002634 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 406425002635 Probable Catalytic site; other site 406425002636 metal-binding site 406425002637 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425002638 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 406425002639 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 406425002640 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 406425002641 Probable Catalytic site; other site 406425002642 metal-binding site 406425002643 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425002644 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 406425002645 Probable Catalytic site; other site 406425002646 metal-binding site 406425002647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 406425002648 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 406425002649 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425002650 active site 406425002651 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425002652 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425002653 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 406425002654 putative NAD(P) binding site [chemical binding]; other site 406425002655 active site 406425002656 putative substrate binding site [chemical binding]; other site 406425002657 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 406425002658 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 406425002659 Mg++ binding site [ion binding]; other site 406425002660 putative catalytic motif [active] 406425002661 putative substrate binding site [chemical binding]; other site 406425002662 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 406425002663 CoA binding domain; Region: CoA_binding; cl17356 406425002664 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 406425002665 NAD(P) binding site [chemical binding]; other site 406425002666 homodimer interface [polypeptide binding]; other site 406425002667 substrate binding site [chemical binding]; other site 406425002668 active site 406425002669 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 406425002670 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 406425002671 Mg++ binding site [ion binding]; other site 406425002672 putative catalytic motif [active] 406425002673 UDP-glucose 4-epimerase; Region: PLN02240 406425002674 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 406425002675 NAD binding site [chemical binding]; other site 406425002676 homodimer interface [polypeptide binding]; other site 406425002677 active site 406425002678 substrate binding site [chemical binding]; other site 406425002679 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 406425002680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425002681 putative ADP-binding pocket [chemical binding]; other site 406425002682 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425002683 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425002684 active site 406425002685 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 406425002686 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 406425002687 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 406425002688 active site 406425002689 substrate binding site [chemical binding]; other site 406425002690 metal binding site [ion binding]; metal-binding site 406425002691 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425002692 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425002693 putative active site [active] 406425002694 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 406425002695 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 406425002696 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 406425002697 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425002698 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 406425002699 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 406425002700 UreF; Region: UreF; pfam01730 406425002701 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 406425002702 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 406425002703 dimer interface [polypeptide binding]; other site 406425002704 catalytic residues [active] 406425002705 urease subunit alpha; Reviewed; Region: ureC; PRK13207 406425002706 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 406425002707 subunit interactions [polypeptide binding]; other site 406425002708 active site 406425002709 flap region; other site 406425002710 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 406425002711 gamma-beta subunit interface [polypeptide binding]; other site 406425002712 alpha-beta subunit interface [polypeptide binding]; other site 406425002713 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 406425002714 alpha-gamma subunit interface [polypeptide binding]; other site 406425002715 beta-gamma subunit interface [polypeptide binding]; other site 406425002716 UreD urease accessory protein; Region: UreD; cl00530 406425002717 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 406425002718 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 406425002719 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 406425002720 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 406425002721 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425002722 Walker A/P-loop; other site 406425002723 ATP binding site [chemical binding]; other site 406425002724 Q-loop/lid; other site 406425002725 ABC transporter signature motif; other site 406425002726 Walker B; other site 406425002727 D-loop; other site 406425002728 H-loop/switch region; other site 406425002729 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 406425002730 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425002731 Walker A/P-loop; other site 406425002732 ATP binding site [chemical binding]; other site 406425002733 Q-loop/lid; other site 406425002734 ABC transporter signature motif; other site 406425002735 Walker B; other site 406425002736 D-loop; other site 406425002737 H-loop/switch region; other site 406425002738 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425002739 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425002740 TM-ABC transporter signature motif; other site 406425002741 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425002742 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425002743 TM-ABC transporter signature motif; other site 406425002744 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425002745 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 406425002746 putative ligand binding site [chemical binding]; other site 406425002747 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 406425002748 active site residue [active] 406425002749 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 406425002750 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425002751 S-adenosylmethionine binding site [chemical binding]; other site 406425002752 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 406425002753 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425002754 FeS/SAM binding site; other site 406425002755 HemN C-terminal domain; Region: HemN_C; pfam06969 406425002756 Flagellin N-methylase; Region: FliB; pfam03692 406425002757 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 406425002758 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 406425002759 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425002760 S-adenosylmethionine binding site [chemical binding]; other site 406425002761 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425002762 Transposase; Region: HTH_Tnp_1; pfam01527 406425002763 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425002764 Helix-turn-helix domain; Region: HTH_38; pfam13936 406425002765 Integrase core domain; Region: rve; pfam00665 406425002766 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 406425002767 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425002768 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 406425002769 putative active site pocket [active] 406425002770 metal binding site [ion binding]; metal-binding site 406425002771 LysE type translocator; Region: LysE; cl00565 406425002772 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 406425002773 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425002774 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 406425002775 putative dimerization interface [polypeptide binding]; other site 406425002776 benzoate transport; Region: 2A0115; TIGR00895 406425002777 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002778 putative substrate translocation pore; other site 406425002779 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425002780 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425002781 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 406425002782 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425002783 substrate binding site [chemical binding]; other site 406425002784 oxyanion hole (OAH) forming residues; other site 406425002785 trimer interface [polypeptide binding]; other site 406425002786 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 406425002787 Chromate transporter; Region: Chromate_transp; pfam02417 406425002788 Chromate transporter; Region: Chromate_transp; pfam02417 406425002789 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 406425002790 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425002791 DNA-binding site [nucleotide binding]; DNA binding site 406425002792 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 406425002793 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 406425002794 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 406425002795 dimer interface [polypeptide binding]; other site 406425002796 ADP-ribose binding site [chemical binding]; other site 406425002797 active site 406425002798 nudix motif; other site 406425002799 metal binding site [ion binding]; metal-binding site 406425002800 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 406425002801 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 406425002802 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425002803 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 406425002804 active site 406425002805 catalytic triad [active] 406425002806 calcium binding site [ion binding]; other site 406425002807 chromosome condensation membrane protein; Provisional; Region: PRK14196 406425002808 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 406425002809 YGGT family; Region: YGGT; pfam02325 406425002810 YGGT family; Region: YGGT; pfam02325 406425002811 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 406425002812 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 406425002813 LysE type translocator; Region: LysE; cl00565 406425002814 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 406425002815 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 406425002816 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425002817 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425002818 catalytic residue [active] 406425002819 aminotransferase; Validated; Region: PRK07337 406425002820 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425002821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425002822 homodimer interface [polypeptide binding]; other site 406425002823 catalytic residue [active] 406425002824 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 406425002825 putative RNA binding site [nucleotide binding]; other site 406425002826 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 406425002827 homopentamer interface [polypeptide binding]; other site 406425002828 active site 406425002829 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 406425002830 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 406425002831 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 406425002832 dimerization interface [polypeptide binding]; other site 406425002833 active site 406425002834 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 406425002835 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 406425002836 Lumazine binding domain; Region: Lum_binding; pfam00677 406425002837 Lumazine binding domain; Region: Lum_binding; pfam00677 406425002838 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 406425002839 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 406425002840 catalytic motif [active] 406425002841 Zn binding site [ion binding]; other site 406425002842 RibD C-terminal domain; Region: RibD_C; cl17279 406425002843 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 406425002844 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425002845 inhibitor-cofactor binding pocket; inhibition site 406425002846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425002847 catalytic residue [active] 406425002848 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 406425002849 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002850 putative substrate translocation pore; other site 406425002851 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 406425002852 glucokinase; Provisional; Region: glk; PRK00292 406425002853 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425002854 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425002855 putative active site [active] 406425002856 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 406425002857 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 406425002858 putative active site [active] 406425002859 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 406425002860 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 406425002861 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 406425002862 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425002863 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 406425002864 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425002865 dimer interface [polypeptide binding]; other site 406425002866 conserved gate region; other site 406425002867 putative PBP binding loops; other site 406425002868 ABC-ATPase subunit interface; other site 406425002869 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425002870 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425002871 dimer interface [polypeptide binding]; other site 406425002872 conserved gate region; other site 406425002873 putative PBP binding loops; other site 406425002874 ABC-ATPase subunit interface; other site 406425002875 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 406425002876 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 406425002877 Walker A/P-loop; other site 406425002878 ATP binding site [chemical binding]; other site 406425002879 Q-loop/lid; other site 406425002880 ABC transporter signature motif; other site 406425002881 Walker B; other site 406425002882 D-loop; other site 406425002883 H-loop/switch region; other site 406425002884 TOBE domain; Region: TOBE_2; pfam08402 406425002885 Predicted membrane protein [Function unknown]; Region: COG2860 406425002886 UPF0126 domain; Region: UPF0126; pfam03458 406425002887 UPF0126 domain; Region: UPF0126; pfam03458 406425002888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 406425002889 Smr domain; Region: Smr; pfam01713 406425002890 thioredoxin reductase; Provisional; Region: PRK10262 406425002891 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425002892 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425002893 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 406425002894 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 406425002895 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 406425002896 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 406425002897 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 406425002898 recombination factor protein RarA; Reviewed; Region: PRK13342 406425002899 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425002900 Walker A motif; other site 406425002901 ATP binding site [chemical binding]; other site 406425002902 Walker B motif; other site 406425002903 arginine finger; other site 406425002904 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 406425002905 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 406425002906 seryl-tRNA synthetase; Provisional; Region: PRK05431 406425002907 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 406425002908 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 406425002909 dimer interface [polypeptide binding]; other site 406425002910 active site 406425002911 motif 1; other site 406425002912 motif 2; other site 406425002913 motif 3; other site 406425002914 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 406425002915 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425002916 Di-iron ligands [ion binding]; other site 406425002917 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425002918 septum formation inhibitor; Reviewed; Region: PRK01973 406425002919 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 406425002920 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 406425002921 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 406425002922 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 406425002923 Switch I; other site 406425002924 Switch II; other site 406425002925 cell division topological specificity factor MinE; Provisional; Region: PRK13989 406425002926 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 406425002927 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 406425002928 putative ion selectivity filter; other site 406425002929 putative pore gating glutamate residue; other site 406425002930 putative H+/Cl- coupling transport residue; other site 406425002931 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425002932 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425002933 putative active site [active] 406425002934 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002935 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425002936 putative substrate translocation pore; other site 406425002937 Gram-negative bacterial tonB protein; Region: TonB; cl10048 406425002938 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 406425002939 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425002940 FeS/SAM binding site; other site 406425002941 HemN C-terminal domain; Region: HemN_C; pfam06969 406425002942 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 406425002943 active site 406425002944 dimerization interface [polypeptide binding]; other site 406425002945 ribonuclease PH; Reviewed; Region: rph; PRK00173 406425002946 Ribonuclease PH; Region: RNase_PH_bact; cd11362 406425002947 hexamer interface [polypeptide binding]; other site 406425002948 active site 406425002949 hypothetical protein; Provisional; Region: PRK11820 406425002950 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 406425002951 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 406425002952 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 406425002953 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 406425002954 catalytic site [active] 406425002955 G-X2-G-X-G-K; other site 406425002956 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 406425002957 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 406425002958 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425002959 Zn2+ binding site [ion binding]; other site 406425002960 Mg2+ binding site [ion binding]; other site 406425002961 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 406425002962 synthetase active site [active] 406425002963 NTP binding site [chemical binding]; other site 406425002964 metal binding site [ion binding]; metal-binding site 406425002965 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 406425002966 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 406425002967 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 406425002968 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 406425002969 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 406425002970 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425002971 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425002972 trimer interface [polypeptide binding]; other site 406425002973 eyelet of channel; other site 406425002974 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 406425002975 DNA-binding site [nucleotide binding]; DNA binding site 406425002976 RNA-binding motif; other site 406425002977 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 406425002978 active site 406425002979 catalytic site [active] 406425002980 substrate binding site [chemical binding]; other site 406425002981 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 406425002982 GIY-YIG motif/motif A; other site 406425002983 active site 406425002984 catalytic site [active] 406425002985 putative DNA binding site [nucleotide binding]; other site 406425002986 metal binding site [ion binding]; metal-binding site 406425002987 chorismate mutase; Provisional; Region: PRK09269 406425002988 Chorismate mutase type II; Region: CM_2; cl00693 406425002989 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 406425002990 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 406425002991 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425002992 N-terminal plug; other site 406425002993 ligand-binding site [chemical binding]; other site 406425002994 fructose-1,6-bisphosphatase family protein; Region: PLN02628 406425002995 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 406425002996 AMP binding site [chemical binding]; other site 406425002997 metal binding site [ion binding]; metal-binding site 406425002998 active site 406425002999 aminopeptidase N; Provisional; Region: pepN; PRK14015 406425003000 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 406425003001 active site 406425003002 Zn binding site [ion binding]; other site 406425003003 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 406425003004 Predicted membrane protein [Function unknown]; Region: COG2119 406425003005 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 406425003006 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 406425003007 guanine deaminase; Provisional; Region: PRK09228 406425003008 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 406425003009 active site 406425003010 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 406425003011 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 406425003012 active site 406425003013 purine riboside binding site [chemical binding]; other site 406425003014 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 406425003015 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 406425003016 XdhC Rossmann domain; Region: XdhC_C; pfam13478 406425003017 disulfide bond formation protein B; Provisional; Region: PRK02110 406425003018 amidase; Provisional; Region: PRK07056 406425003019 Amidase; Region: Amidase; cl11426 406425003020 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425003021 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425003022 DNA-binding site [nucleotide binding]; DNA binding site 406425003023 FCD domain; Region: FCD; pfam07729 406425003024 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 406425003025 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 406425003026 catalytic triad [active] 406425003027 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 406425003028 citrate-proton symporter; Provisional; Region: PRK15075 406425003029 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003030 putative substrate translocation pore; other site 406425003031 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 406425003032 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425003033 binding surface 406425003034 TPR motif; other site 406425003035 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425003036 binding surface 406425003037 TPR motif; other site 406425003038 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425003039 TPR motif; other site 406425003040 binding surface 406425003041 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425003042 hypothetical protein; Provisional; Region: PRK06184 406425003043 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425003044 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 406425003045 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 406425003046 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425003047 catalytic loop [active] 406425003048 iron binding site [ion binding]; other site 406425003049 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 406425003050 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 406425003051 [4Fe-4S] binding site [ion binding]; other site 406425003052 molybdopterin cofactor binding site; other site 406425003053 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 406425003054 molybdopterin cofactor binding site; other site 406425003055 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 406425003056 putative dimer interface [polypeptide binding]; other site 406425003057 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 406425003058 SLBB domain; Region: SLBB; pfam10531 406425003059 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 406425003060 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 406425003061 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 406425003062 putative dimer interface [polypeptide binding]; other site 406425003063 [2Fe-2S] cluster binding site [ion binding]; other site 406425003064 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 406425003065 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 406425003066 PBP superfamily domain; Region: PBP_like; pfam12727 406425003067 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425003068 phosphoglycolate phosphatase; Provisional; Region: PRK13222 406425003069 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425003070 motif II; other site 406425003071 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 406425003072 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425003073 S-adenosylmethionine binding site [chemical binding]; other site 406425003074 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425003075 ligand binding site [chemical binding]; other site 406425003076 DNA gyrase subunit A; Validated; Region: PRK05560 406425003077 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 406425003078 CAP-like domain; other site 406425003079 active site 406425003080 primary dimer interface [polypeptide binding]; other site 406425003081 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425003082 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425003083 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425003084 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425003085 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425003086 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425003087 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 406425003088 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 406425003089 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 406425003090 homodimer interface [polypeptide binding]; other site 406425003091 substrate-cofactor binding pocket; other site 406425003092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425003093 catalytic residue [active] 406425003094 Chorismate mutase type II; Region: CM_2; smart00830 406425003095 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 406425003096 Prephenate dehydratase; Region: PDT; pfam00800 406425003097 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 406425003098 putative L-Phe binding site [chemical binding]; other site 406425003099 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 406425003100 prephenate dehydrogenase; Validated; Region: PRK08507 406425003101 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 406425003102 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 406425003103 hinge; other site 406425003104 active site 406425003105 cytidylate kinase; Provisional; Region: cmk; PRK00023 406425003106 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 406425003107 CMP-binding site; other site 406425003108 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 406425003109 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 406425003110 RNA binding site [nucleotide binding]; other site 406425003111 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 406425003112 RNA binding site [nucleotide binding]; other site 406425003113 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 406425003114 RNA binding site [nucleotide binding]; other site 406425003115 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 406425003116 RNA binding site [nucleotide binding]; other site 406425003117 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 406425003118 RNA binding site [nucleotide binding]; other site 406425003119 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 406425003120 RNA binding site [nucleotide binding]; other site 406425003121 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 406425003122 IHF dimer interface [polypeptide binding]; other site 406425003123 IHF - DNA interface [nucleotide binding]; other site 406425003124 tetratricopeptide repeat protein; Provisional; Region: PRK11788 406425003125 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425003126 binding surface 406425003127 TPR motif; other site 406425003128 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 406425003129 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 406425003130 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 406425003131 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 406425003132 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 406425003133 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425003134 putative ribose interaction site [chemical binding]; other site 406425003135 putative ADP binding site [chemical binding]; other site 406425003136 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 406425003137 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 406425003138 NADP binding site [chemical binding]; other site 406425003139 homopentamer interface [polypeptide binding]; other site 406425003140 substrate binding site [chemical binding]; other site 406425003141 active site 406425003142 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 406425003143 cysteine synthase B; Region: cysM; TIGR01138 406425003144 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 406425003145 dimer interface [polypeptide binding]; other site 406425003146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425003147 catalytic residue [active] 406425003148 Transglycosylase SLT domain; Region: SLT_2; pfam13406 406425003149 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425003150 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425003151 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 406425003152 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 406425003153 putative active site [active] 406425003154 Zn binding site [ion binding]; other site 406425003155 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 406425003156 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425003157 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 406425003158 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 406425003159 Walker A/P-loop; other site 406425003160 ATP binding site [chemical binding]; other site 406425003161 Q-loop/lid; other site 406425003162 ABC transporter signature motif; other site 406425003163 Walker B; other site 406425003164 D-loop; other site 406425003165 H-loop/switch region; other site 406425003166 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 406425003167 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003168 dimer interface [polypeptide binding]; other site 406425003169 conserved gate region; other site 406425003170 ABC-ATPase subunit interface; other site 406425003171 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 406425003172 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 406425003173 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 406425003174 Ligand binding site [chemical binding]; other site 406425003175 Electron transfer flavoprotein domain; Region: ETF; pfam01012 406425003176 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 406425003177 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 406425003178 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 406425003179 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 406425003180 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425003181 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425003182 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 406425003183 AsnC family; Region: AsnC_trans_reg; pfam01037 406425003184 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 406425003185 TM2 domain; Region: TM2; pfam05154 406425003186 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 406425003187 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 406425003188 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 406425003189 RimM N-terminal domain; Region: RimM; pfam01782 406425003190 PRC-barrel domain; Region: PRC; pfam05239 406425003191 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 406425003192 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 406425003193 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 406425003194 putative active site [active] 406425003195 putative CoA binding site [chemical binding]; other site 406425003196 nudix motif; other site 406425003197 metal binding site [ion binding]; metal-binding site 406425003198 CobD/CbiB family protein; Provisional; Region: PRK07630 406425003199 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 406425003200 GTPase RsgA; Reviewed; Region: PRK00098 406425003201 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 406425003202 RNA binding site [nucleotide binding]; other site 406425003203 homodimer interface [polypeptide binding]; other site 406425003204 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 406425003205 GTPase/Zn-binding domain interface [polypeptide binding]; other site 406425003206 GTP/Mg2+ binding site [chemical binding]; other site 406425003207 G4 box; other site 406425003208 G5 box; other site 406425003209 G1 box; other site 406425003210 Switch I region; other site 406425003211 G2 box; other site 406425003212 G3 box; other site 406425003213 Switch II region; other site 406425003214 Peptidase family M48; Region: Peptidase_M48; pfam01435 406425003215 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 406425003216 catalytic site [active] 406425003217 putative active site [active] 406425003218 putative substrate binding site [chemical binding]; other site 406425003219 dimer interface [polypeptide binding]; other site 406425003220 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 406425003221 MPT binding site; other site 406425003222 trimer interface [polypeptide binding]; other site 406425003223 hypothetical protein; Provisional; Region: PRK05255 406425003224 peptidase PmbA; Provisional; Region: PRK11040 406425003225 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 406425003226 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 406425003227 folate binding site [chemical binding]; other site 406425003228 NADP+ binding site [chemical binding]; other site 406425003229 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425003230 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 406425003231 Walker A motif; other site 406425003232 ATP binding site [chemical binding]; other site 406425003233 Walker B motif; other site 406425003234 arginine finger; other site 406425003235 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 406425003236 thymidylate synthase; Provisional; Region: thyA; PRK13821 406425003237 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 406425003238 dimerization interface [polypeptide binding]; other site 406425003239 active site 406425003240 FecR protein; Region: FecR; pfam04773 406425003241 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425003242 dimerization interface [polypeptide binding]; other site 406425003243 putative DNA binding site [nucleotide binding]; other site 406425003244 putative Zn2+ binding site [ion binding]; other site 406425003245 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 406425003246 fumarate hydratase; Reviewed; Region: fumC; PRK00485 406425003247 Class II fumarases; Region: Fumarase_classII; cd01362 406425003248 active site 406425003249 tetramer interface [polypeptide binding]; other site 406425003250 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 406425003251 putative efflux protein, MATE family; Region: matE; TIGR00797 406425003252 cation binding site [ion binding]; other site 406425003253 S4 domain; Region: S4_2; pfam13275 406425003254 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 406425003255 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 406425003256 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 406425003257 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425003258 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425003259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425003260 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425003261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 406425003262 CreA protein; Region: CreA; pfam05981 406425003263 Ferredoxin [Energy production and conversion]; Region: COG1146 406425003264 4Fe-4S binding domain; Region: Fer4; cl02805 406425003265 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 406425003266 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 406425003267 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 406425003268 active site 406425003269 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 406425003270 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 406425003271 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 406425003272 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 406425003273 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 406425003274 dimerization interface [polypeptide binding]; other site 406425003275 ligand binding site [chemical binding]; other site 406425003276 NADP binding site [chemical binding]; other site 406425003277 catalytic site [active] 406425003278 RmuC family; Region: RmuC; pfam02646 406425003279 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425003280 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425003281 Coenzyme A binding pocket [chemical binding]; other site 406425003282 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 406425003283 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 406425003284 dimer interface [polypeptide binding]; other site 406425003285 putative functional site; other site 406425003286 putative MPT binding site; other site 406425003287 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 406425003288 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 406425003289 GTP binding site; other site 406425003290 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 406425003291 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425003292 FeS/SAM binding site; other site 406425003293 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 406425003294 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 406425003295 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 406425003296 homodimer interface [polypeptide binding]; other site 406425003297 oligonucleotide binding site [chemical binding]; other site 406425003298 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 406425003299 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 406425003300 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 406425003301 active site 406425003302 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 406425003303 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425003304 motif II; other site 406425003305 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 406425003306 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 406425003307 iron-sulfur cluster [ion binding]; other site 406425003308 [2Fe-2S] cluster binding site [ion binding]; other site 406425003309 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 406425003310 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 406425003311 tandem repeat interface [polypeptide binding]; other site 406425003312 oligomer interface [polypeptide binding]; other site 406425003313 active site residues [active] 406425003314 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 406425003315 putative SAM binding site [chemical binding]; other site 406425003316 homodimer interface [polypeptide binding]; other site 406425003317 Maf-like protein; Region: Maf; pfam02545 406425003318 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 406425003319 active site 406425003320 dimer interface [polypeptide binding]; other site 406425003321 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 406425003322 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 406425003323 putative phosphate acyltransferase; Provisional; Region: PRK05331 406425003324 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 406425003325 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 406425003326 dimer interface [polypeptide binding]; other site 406425003327 active site 406425003328 CoA binding pocket [chemical binding]; other site 406425003329 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 406425003330 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 406425003331 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 406425003332 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 406425003333 NAD(P) binding site [chemical binding]; other site 406425003334 homotetramer interface [polypeptide binding]; other site 406425003335 homodimer interface [polypeptide binding]; other site 406425003336 active site 406425003337 acyl carrier protein; Provisional; Region: acpP; PRK00982 406425003338 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 406425003339 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 406425003340 dimer interface [polypeptide binding]; other site 406425003341 active site 406425003342 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 406425003343 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425003344 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425003345 DNA binding residues [nucleotide binding] 406425003346 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 406425003347 anti-sigma E factor; Provisional; Region: rseB; PRK09455 406425003348 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 406425003349 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 406425003350 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 406425003351 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425003352 protein binding site [polypeptide binding]; other site 406425003353 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425003354 protein binding site [polypeptide binding]; other site 406425003355 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 406425003356 GTP-binding protein LepA; Provisional; Region: PRK05433 406425003357 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 406425003358 G1 box; other site 406425003359 putative GEF interaction site [polypeptide binding]; other site 406425003360 GTP/Mg2+ binding site [chemical binding]; other site 406425003361 Switch I region; other site 406425003362 G2 box; other site 406425003363 G3 box; other site 406425003364 Switch II region; other site 406425003365 G4 box; other site 406425003366 G5 box; other site 406425003367 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 406425003368 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 406425003369 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 406425003370 signal peptidase I; Provisional; Region: PRK10861 406425003371 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 406425003372 Catalytic site [active] 406425003373 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 406425003374 ribonuclease III; Reviewed; Region: PRK12372 406425003375 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 406425003376 dimerization interface [polypeptide binding]; other site 406425003377 active site 406425003378 metal binding site [ion binding]; metal-binding site 406425003379 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 406425003380 GTPase Era; Reviewed; Region: era; PRK00089 406425003381 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 406425003382 G1 box; other site 406425003383 GTP/Mg2+ binding site [chemical binding]; other site 406425003384 Switch I region; other site 406425003385 G2 box; other site 406425003386 Switch II region; other site 406425003387 G3 box; other site 406425003388 G4 box; other site 406425003389 G5 box; other site 406425003390 KH domain; Region: KH_2; pfam07650 406425003391 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 406425003392 Recombination protein O N terminal; Region: RecO_N; pfam11967 406425003393 Recombination protein O C terminal; Region: RecO_C; pfam02565 406425003394 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 406425003395 active site 406425003396 hydrophilic channel; other site 406425003397 dimerization interface [polypeptide binding]; other site 406425003398 catalytic residues [active] 406425003399 active site lid [active] 406425003400 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 406425003401 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 406425003402 beta-hexosaminidase; Provisional; Region: PRK05337 406425003403 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425003404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425003405 active site 406425003406 phosphorylation site [posttranslational modification] 406425003407 intermolecular recognition site; other site 406425003408 dimerization interface [polypeptide binding]; other site 406425003409 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425003410 Walker A motif; other site 406425003411 ATP binding site [chemical binding]; other site 406425003412 Walker B motif; other site 406425003413 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425003414 elongation factor P; Validated; Region: PRK00529 406425003415 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 406425003416 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 406425003417 RNA binding site [nucleotide binding]; other site 406425003418 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 406425003419 RNA binding site [nucleotide binding]; other site 406425003420 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 406425003421 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 406425003422 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 406425003423 GIY-YIG motif/motif A; other site 406425003424 active site 406425003425 catalytic site [active] 406425003426 putative DNA binding site [nucleotide binding]; other site 406425003427 metal binding site [ion binding]; metal-binding site 406425003428 UvrB/uvrC motif; Region: UVR; pfam02151 406425003429 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 406425003430 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 406425003431 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 406425003432 Response regulator receiver domain; Region: Response_reg; pfam00072 406425003433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425003434 active site 406425003435 phosphorylation site [posttranslational modification] 406425003436 intermolecular recognition site; other site 406425003437 dimerization interface [polypeptide binding]; other site 406425003438 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 406425003439 Transposase; Region: HTH_Tnp_IS630; pfam01710 406425003440 putative transposase OrfB; Reviewed; Region: PHA02517 406425003441 HTH-like domain; Region: HTH_21; pfam13276 406425003442 Integrase core domain; Region: rve; pfam00665 406425003443 Integrase core domain; Region: rve_2; pfam13333 406425003444 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 406425003445 PAAR motif; Region: PAAR_motif; pfam05488 406425003446 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425003447 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425003448 S-adenosylmethionine binding site [chemical binding]; other site 406425003449 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 406425003450 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425003451 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425003452 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 406425003453 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 406425003454 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425003455 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425003456 non-specific DNA binding site [nucleotide binding]; other site 406425003457 salt bridge; other site 406425003458 sequence-specific DNA binding site [nucleotide binding]; other site 406425003459 Cupin domain; Region: Cupin_2; pfam07883 406425003460 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 406425003461 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 406425003462 active site 406425003463 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 406425003464 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425003465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425003466 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 406425003467 putative effector binding pocket; other site 406425003468 putative dimerization interface [polypeptide binding]; other site 406425003469 Pirin-related protein [General function prediction only]; Region: COG1741 406425003470 Pirin; Region: Pirin; pfam02678 406425003471 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 406425003472 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 406425003473 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425003474 Coenzyme A binding pocket [chemical binding]; other site 406425003475 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 406425003476 Protein of unknown function (DUF461); Region: DUF461; pfam04314 406425003477 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 406425003478 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 406425003479 Cu(I) binding site [ion binding]; other site 406425003480 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 406425003481 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 406425003482 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 406425003483 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 406425003484 active site 406425003485 homotetramer interface [polypeptide binding]; other site 406425003486 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425003487 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 406425003488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425003489 Walker A/P-loop; other site 406425003490 ATP binding site [chemical binding]; other site 406425003491 Q-loop/lid; other site 406425003492 ABC transporter signature motif; other site 406425003493 Walker B; other site 406425003494 D-loop; other site 406425003495 H-loop/switch region; other site 406425003496 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425003497 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 406425003498 putative ADP-binding pocket [chemical binding]; other site 406425003499 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 406425003500 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 406425003501 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 406425003502 active site 406425003503 tetramer interface [polypeptide binding]; other site 406425003504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425003505 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 406425003506 DNA-binding site [nucleotide binding]; DNA binding site 406425003507 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 406425003508 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425003509 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425003510 dimerization interface [polypeptide binding]; other site 406425003511 ligand binding site [chemical binding]; other site 406425003512 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425003513 Phosphoesterase family; Region: Phosphoesterase; pfam04185 406425003514 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425003515 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425003516 pyridoxamine kinase; Validated; Region: PRK05756 406425003517 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 406425003518 dimer interface [polypeptide binding]; other site 406425003519 pyridoxal binding site [chemical binding]; other site 406425003520 ATP binding site [chemical binding]; other site 406425003521 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425003522 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425003523 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 406425003524 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425003525 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 406425003526 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 406425003527 ligand binding site; other site 406425003528 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 406425003529 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 406425003530 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 406425003531 B12 binding site [chemical binding]; other site 406425003532 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425003533 FeS/SAM binding site; other site 406425003534 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 406425003535 putative active site [active] 406425003536 YdjC motif; other site 406425003537 Mg binding site [ion binding]; other site 406425003538 putative homodimer interface [polypeptide binding]; other site 406425003539 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 406425003540 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 406425003541 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 406425003542 Protein of unknown function (DUF497); Region: DUF497; pfam04365 406425003543 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425003544 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003545 dimer interface [polypeptide binding]; other site 406425003546 conserved gate region; other site 406425003547 putative PBP binding loops; other site 406425003548 ABC-ATPase subunit interface; other site 406425003549 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425003550 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003551 dimer interface [polypeptide binding]; other site 406425003552 conserved gate region; other site 406425003553 putative PBP binding loops; other site 406425003554 ABC-ATPase subunit interface; other site 406425003555 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425003556 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425003557 Walker A/P-loop; other site 406425003558 ATP binding site [chemical binding]; other site 406425003559 Q-loop/lid; other site 406425003560 ABC transporter signature motif; other site 406425003561 Walker B; other site 406425003562 D-loop; other site 406425003563 H-loop/switch region; other site 406425003564 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425003565 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425003566 conserved cys residue [active] 406425003567 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425003568 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425003569 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 406425003570 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425003571 inhibitor-cofactor binding pocket; inhibition site 406425003572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425003573 catalytic residue [active] 406425003574 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 406425003575 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 406425003576 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 406425003577 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 406425003578 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 406425003579 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 406425003580 NAD(P) binding site [chemical binding]; other site 406425003581 catalytic residues [active] 406425003582 succinylarginine dihydrolase; Provisional; Region: PRK13281 406425003583 succinylglutamate desuccinylase; Provisional; Region: PRK05324 406425003584 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 406425003585 active site 406425003586 Zn binding site [ion binding]; other site 406425003587 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425003588 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425003589 substrate binding pocket [chemical binding]; other site 406425003590 membrane-bound complex binding site; other site 406425003591 hinge residues; other site 406425003592 HDOD domain; Region: HDOD; pfam08668 406425003593 PAS domain; Region: PAS_9; pfam13426 406425003594 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425003595 putative active site [active] 406425003596 heme pocket [chemical binding]; other site 406425003597 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425003598 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425003599 metal binding site [ion binding]; metal-binding site 406425003600 active site 406425003601 I-site; other site 406425003602 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425003603 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 406425003604 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425003605 catalytic triad [active] 406425003606 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 406425003607 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425003608 NAD(P) binding site [chemical binding]; other site 406425003609 putative active site [active] 406425003610 NYN domain; Region: NYN; pfam01936 406425003611 putative metal binding site [ion binding]; other site 406425003612 Uncharacterized conserved protein [Function unknown]; Region: COG1432 406425003613 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 406425003614 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425003615 active site 406425003616 metal binding site [ion binding]; metal-binding site 406425003617 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 406425003618 Protein export membrane protein; Region: SecD_SecF; cl14618 406425003619 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 406425003620 Protein export membrane protein; Region: SecD_SecF; cl14618 406425003621 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425003622 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425003623 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425003624 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425003625 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425003626 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425003627 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 406425003628 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 406425003629 Predicted transcriptional regulator [Transcription]; Region: COG1959 406425003630 Transcriptional regulator; Region: Rrf2; pfam02082 406425003631 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 406425003632 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425003633 NAD binding site [chemical binding]; other site 406425003634 putative active site [active] 406425003635 substrate binding site [chemical binding]; other site 406425003636 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425003637 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425003638 putative DNA binding site [nucleotide binding]; other site 406425003639 putative Zn2+ binding site [ion binding]; other site 406425003640 AsnC family; Region: AsnC_trans_reg; pfam01037 406425003641 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 406425003642 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 406425003643 Walker A/P-loop; other site 406425003644 ATP binding site [chemical binding]; other site 406425003645 Q-loop/lid; other site 406425003646 ABC transporter signature motif; other site 406425003647 Walker B; other site 406425003648 D-loop; other site 406425003649 H-loop/switch region; other site 406425003650 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 406425003651 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003652 dimer interface [polypeptide binding]; other site 406425003653 conserved gate region; other site 406425003654 putative PBP binding loops; other site 406425003655 ABC-ATPase subunit interface; other site 406425003656 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 406425003657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003658 dimer interface [polypeptide binding]; other site 406425003659 conserved gate region; other site 406425003660 putative PBP binding loops; other site 406425003661 ABC-ATPase subunit interface; other site 406425003662 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 406425003663 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 406425003664 putative proline-specific permease; Provisional; Region: proY; PRK10580 406425003665 Spore germination protein; Region: Spore_permease; cl17796 406425003666 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 406425003667 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 406425003668 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 406425003669 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 406425003670 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 406425003671 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 406425003672 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 406425003673 Family description; Region: UvrD_C_2; pfam13538 406425003674 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 406425003675 AAA domain; Region: AAA_30; pfam13604 406425003676 Family description; Region: UvrD_C_2; pfam13538 406425003677 hypothetical protein; Provisional; Region: PRK09256 406425003678 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 406425003679 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425003680 EamA-like transporter family; Region: EamA; pfam00892 406425003681 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425003682 EamA-like transporter family; Region: EamA; pfam00892 406425003683 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 406425003684 ThiC-associated domain; Region: ThiC-associated; pfam13667 406425003685 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 406425003686 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 406425003687 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 406425003688 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 406425003689 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 406425003690 Moco binding site; other site 406425003691 metal coordination site [ion binding]; other site 406425003692 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425003693 non-specific DNA binding site [nucleotide binding]; other site 406425003694 salt bridge; other site 406425003695 sequence-specific DNA binding site [nucleotide binding]; other site 406425003696 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 406425003697 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 406425003698 EamA-like transporter family; Region: EamA; pfam00892 406425003699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425003700 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425003701 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425003702 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425003703 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003704 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 406425003705 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425003706 active site 406425003707 metal binding site [ion binding]; metal-binding site 406425003708 hexamer interface [polypeptide binding]; other site 406425003709 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 406425003710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425003711 Walker A/P-loop; other site 406425003712 ATP binding site [chemical binding]; other site 406425003713 Q-loop/lid; other site 406425003714 ABC transporter signature motif; other site 406425003715 Walker B; other site 406425003716 D-loop; other site 406425003717 H-loop/switch region; other site 406425003718 TOBE domain; Region: TOBE_2; pfam08402 406425003719 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425003720 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003721 dimer interface [polypeptide binding]; other site 406425003722 conserved gate region; other site 406425003723 putative PBP binding loops; other site 406425003724 ABC-ATPase subunit interface; other site 406425003725 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 406425003726 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003727 dimer interface [polypeptide binding]; other site 406425003728 conserved gate region; other site 406425003729 ABC-ATPase subunit interface; other site 406425003730 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425003731 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 406425003732 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425003733 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425003734 DNA binding site [nucleotide binding] 406425003735 domain linker motif; other site 406425003736 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 406425003737 putative dimerization interface [polypeptide binding]; other site 406425003738 putative ligand binding site [chemical binding]; other site 406425003739 oxidoreductase; Provisional; Region: PRK06128 406425003740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425003741 NAD(P) binding site [chemical binding]; other site 406425003742 active site 406425003743 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425003744 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425003745 NAD(P) binding site [chemical binding]; other site 406425003746 DoxX; Region: DoxX; pfam07681 406425003747 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425003748 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425003749 FMN binding site [chemical binding]; other site 406425003750 active site 406425003751 substrate binding site [chemical binding]; other site 406425003752 catalytic residue [active] 406425003753 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425003754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425003755 LysR substrate binding domain; Region: LysR_substrate; pfam03466 406425003756 dimerization interface [polypeptide binding]; other site 406425003757 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 406425003758 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 406425003759 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 406425003760 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 406425003761 tetramer interface [polypeptide binding]; other site 406425003762 TPP-binding site [chemical binding]; other site 406425003763 heterodimer interface [polypeptide binding]; other site 406425003764 phosphorylation loop region [posttranslational modification] 406425003765 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 406425003766 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 406425003767 alpha subunit interface [polypeptide binding]; other site 406425003768 TPP binding site [chemical binding]; other site 406425003769 heterodimer interface [polypeptide binding]; other site 406425003770 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425003771 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 406425003772 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425003773 E3 interaction surface; other site 406425003774 lipoyl attachment site [posttranslational modification]; other site 406425003775 e3 binding domain; Region: E3_binding; pfam02817 406425003776 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 406425003777 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 406425003778 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425003779 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425003780 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425003781 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 406425003782 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 406425003783 NAD binding site [chemical binding]; other site 406425003784 active site 406425003785 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 406425003786 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 406425003787 Na binding site [ion binding]; other site 406425003788 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425003789 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425003790 trimer interface [polypeptide binding]; other site 406425003791 eyelet of channel; other site 406425003792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425003793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425003794 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425003795 dimerization interface [polypeptide binding]; other site 406425003796 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003797 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425003798 putative substrate translocation pore; other site 406425003799 allantoate amidohydrolase; Reviewed; Region: PRK12893 406425003800 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425003801 active site 406425003802 metal binding site [ion binding]; metal-binding site 406425003803 dimer interface [polypeptide binding]; other site 406425003804 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 406425003805 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 406425003806 active site 406425003807 Zn binding site [ion binding]; other site 406425003808 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425003809 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003810 putative substrate translocation pore; other site 406425003811 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425003812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425003813 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425003814 dimerization interface [polypeptide binding]; other site 406425003815 substrate binding pocket [chemical binding]; other site 406425003816 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 406425003817 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 406425003818 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425003819 catalytic residue [active] 406425003820 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 406425003821 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 406425003822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425003823 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425003824 dimerization interface [polypeptide binding]; other site 406425003825 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 406425003826 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 406425003827 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 406425003828 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 406425003829 putative dimer interface [polypeptide binding]; other site 406425003830 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 406425003831 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 406425003832 putative dimer interface [polypeptide binding]; other site 406425003833 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 406425003834 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 406425003835 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425003836 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425003837 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 406425003838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425003839 LysR substrate binding domain; Region: LysR_substrate; pfam03466 406425003840 dimerization interface [polypeptide binding]; other site 406425003841 Malonate transporter MadL subunit; Region: MadL; cl04273 406425003842 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 406425003843 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 406425003844 Coenzyme A transferase; Region: CoA_trans; cl17247 406425003845 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 406425003846 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 406425003847 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 406425003848 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 406425003849 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 406425003850 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 406425003851 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 406425003852 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 406425003853 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 406425003854 putative active site [active] 406425003855 catalytic site [active] 406425003856 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425003857 active site 406425003858 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 406425003859 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 406425003860 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425003861 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 406425003862 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 406425003863 N-terminal domain interface [polypeptide binding]; other site 406425003864 dimer interface [polypeptide binding]; other site 406425003865 substrate binding pocket (H-site) [chemical binding]; other site 406425003866 proline/glycine betaine transporter; Provisional; Region: PRK10642 406425003867 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003868 putative substrate translocation pore; other site 406425003869 hypothetical protein; Provisional; Region: PRK02237 406425003870 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 406425003871 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 406425003872 active site 406425003873 catalytic site [active] 406425003874 substrate binding site [chemical binding]; other site 406425003875 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 406425003876 RNA/DNA hybrid binding site [nucleotide binding]; other site 406425003877 active site 406425003878 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425003879 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 406425003880 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 406425003881 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425003882 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425003883 catalytic residue [active] 406425003884 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 406425003885 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425003886 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003887 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425003888 putative substrate translocation pore; other site 406425003889 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 406425003890 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 406425003891 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 406425003892 catalytic site [active] 406425003893 subunit interface [polypeptide binding]; other site 406425003894 leucine export protein LeuE; Provisional; Region: PRK10958 406425003895 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 406425003896 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425003897 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 406425003898 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 406425003899 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425003900 ATP-grasp domain; Region: ATP-grasp_4; cl17255 406425003901 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 406425003902 IMP binding site; other site 406425003903 dimer interface [polypeptide binding]; other site 406425003904 interdomain contacts; other site 406425003905 partial ornithine binding site; other site 406425003906 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 406425003907 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 406425003908 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 406425003909 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 406425003910 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 406425003911 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 406425003912 FtsJ-like methyltransferase; Region: FtsJ; cl17430 406425003913 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 406425003914 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425003915 Walker A motif; other site 406425003916 ATP binding site [chemical binding]; other site 406425003917 Walker B motif; other site 406425003918 arginine finger; other site 406425003919 Peptidase family M41; Region: Peptidase_M41; pfam01434 406425003920 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 406425003921 dihydropteroate synthase; Region: DHPS; TIGR01496 406425003922 substrate binding pocket [chemical binding]; other site 406425003923 dimer interface [polypeptide binding]; other site 406425003924 inhibitor binding site; inhibition site 406425003925 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 406425003926 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 406425003927 active site 406425003928 substrate binding site [chemical binding]; other site 406425003929 metal binding site [ion binding]; metal-binding site 406425003930 PBP superfamily domain; Region: PBP_like_2; cl17296 406425003931 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 406425003932 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003933 dimer interface [polypeptide binding]; other site 406425003934 conserved gate region; other site 406425003935 putative PBP binding loops; other site 406425003936 ABC-ATPase subunit interface; other site 406425003937 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 406425003938 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003939 dimer interface [polypeptide binding]; other site 406425003940 conserved gate region; other site 406425003941 putative PBP binding loops; other site 406425003942 ABC-ATPase subunit interface; other site 406425003943 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 406425003944 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 406425003945 Walker A/P-loop; other site 406425003946 ATP binding site [chemical binding]; other site 406425003947 Q-loop/lid; other site 406425003948 ABC transporter signature motif; other site 406425003949 Walker B; other site 406425003950 D-loop; other site 406425003951 H-loop/switch region; other site 406425003952 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 406425003953 PhoU domain; Region: PhoU; pfam01895 406425003954 PhoU domain; Region: PhoU; pfam01895 406425003955 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 406425003956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425003957 active site 406425003958 phosphorylation site [posttranslational modification] 406425003959 intermolecular recognition site; other site 406425003960 dimerization interface [polypeptide binding]; other site 406425003961 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425003962 DNA binding site [nucleotide binding] 406425003963 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425003964 PAS domain; Region: PAS; smart00091 406425003965 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425003966 dimer interface [polypeptide binding]; other site 406425003967 phosphorylation site [posttranslational modification] 406425003968 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425003969 ATP binding site [chemical binding]; other site 406425003970 Mg2+ binding site [ion binding]; other site 406425003971 G-X-G motif; other site 406425003972 polyphosphate kinase; Provisional; Region: PRK05443 406425003973 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 406425003974 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 406425003975 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 406425003976 putative active site [active] 406425003977 catalytic site [active] 406425003978 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 406425003979 putative domain interface [polypeptide binding]; other site 406425003980 putative active site [active] 406425003981 catalytic site [active] 406425003982 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 406425003983 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 406425003984 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 406425003985 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 406425003986 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 406425003987 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425003988 active site 406425003989 DNA binding site [nucleotide binding] 406425003990 Int/Topo IB signature motif; other site 406425003991 AAA domain; Region: AAA_25; pfam13481 406425003992 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 406425003993 ATP binding site [chemical binding]; other site 406425003994 Walker B motif; other site 406425003995 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 406425003996 Phage capsid family; Region: Phage_capsid; pfam05065 406425003997 Phage head maturation protease [General function prediction only]; Region: COG3740 406425003998 Phage-related protein [Function unknown]; Region: COG4695 406425003999 Phage portal protein; Region: Phage_portal; pfam04860 406425004000 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 406425004001 active site 406425004002 Phage terminase, small subunit; Region: Terminase_4; pfam05119 406425004003 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 406425004004 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 406425004005 oligomerization interface [polypeptide binding]; other site 406425004006 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 406425004007 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425004008 catalytic core [active] 406425004009 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 406425004010 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 406425004011 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 406425004012 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 406425004013 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 406425004014 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 406425004015 active site 406425004016 acyl-activating enzyme (AAE) consensus motif; other site 406425004017 putative CoA binding site [chemical binding]; other site 406425004018 AMP binding site [chemical binding]; other site 406425004019 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425004020 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 406425004021 Peptidase family M23; Region: Peptidase_M23; pfam01551 406425004022 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 406425004023 active site 406425004024 catalytic residues [active] 406425004025 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 406425004026 CheB methylesterase; Region: CheB_methylest; pfam01339 406425004027 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 406425004028 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 406425004029 Protein of unknown function (DUF972); Region: DUF972; pfam06156 406425004030 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425004031 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425004032 putative active site [active] 406425004033 heme pocket [chemical binding]; other site 406425004034 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425004035 dimer interface [polypeptide binding]; other site 406425004036 phosphorylation site [posttranslational modification] 406425004037 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425004038 ATP binding site [chemical binding]; other site 406425004039 Mg2+ binding site [ion binding]; other site 406425004040 G-X-G motif; other site 406425004041 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 406425004042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425004043 active site 406425004044 phosphorylation site [posttranslational modification] 406425004045 intermolecular recognition site; other site 406425004046 dimerization interface [polypeptide binding]; other site 406425004047 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 406425004048 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425004049 N-terminal plug; other site 406425004050 ligand-binding site [chemical binding]; other site 406425004051 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 406425004052 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425004053 ABC-ATPase subunit interface; other site 406425004054 dimer interface [polypeptide binding]; other site 406425004055 putative PBP binding regions; other site 406425004056 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425004057 ABC-ATPase subunit interface; other site 406425004058 dimer interface [polypeptide binding]; other site 406425004059 putative PBP binding regions; other site 406425004060 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 406425004061 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 406425004062 siderophore binding site; other site 406425004063 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 406425004064 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425004065 Walker A/P-loop; other site 406425004066 ATP binding site [chemical binding]; other site 406425004067 Q-loop/lid; other site 406425004068 ABC transporter signature motif; other site 406425004069 Walker B; other site 406425004070 D-loop; other site 406425004071 H-loop/switch region; other site 406425004072 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 406425004073 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 406425004074 Walker A/P-loop; other site 406425004075 ATP binding site [chemical binding]; other site 406425004076 Q-loop/lid; other site 406425004077 ABC transporter signature motif; other site 406425004078 Walker B; other site 406425004079 D-loop; other site 406425004080 H-loop/switch region; other site 406425004081 Cupin domain; Region: Cupin_2; cl17218 406425004082 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425004083 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425004084 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 406425004085 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 406425004086 glutaminase active site [active] 406425004087 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425004088 dimer interface [polypeptide binding]; other site 406425004089 active site 406425004090 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425004091 dimer interface [polypeptide binding]; other site 406425004092 active site 406425004093 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u2; cd10926 406425004094 putative active site [active] 406425004095 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 406425004096 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425004097 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 406425004098 DXD motif; other site 406425004099 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 406425004100 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 406425004101 active site 406425004102 homodimer interface [polypeptide binding]; other site 406425004103 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 406425004104 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425004105 catalytic loop [active] 406425004106 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425004107 iron binding site [ion binding]; other site 406425004108 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425004109 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425004110 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 406425004111 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425004112 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425004113 aldolase II superfamily protein; Provisional; Region: PRK07044 406425004114 intersubunit interface [polypeptide binding]; other site 406425004115 active site 406425004116 Zn2+ binding site [ion binding]; other site 406425004117 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 406425004118 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 406425004119 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425004120 active site 406425004121 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 406425004122 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425004123 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 406425004124 NAD(P) binding site [chemical binding]; other site 406425004125 Predicted transcriptional regulators [Transcription]; Region: COG1695 406425004126 Transcriptional regulator PadR-like family; Region: PadR; cl17335 406425004127 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 406425004128 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425004129 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 406425004130 active site 406425004131 FMN binding site [chemical binding]; other site 406425004132 2,4-decadienoyl-CoA binding site; other site 406425004133 catalytic residue [active] 406425004134 4Fe-4S cluster binding site [ion binding]; other site 406425004135 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 406425004136 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425004137 SnoaL-like domain; Region: SnoaL_2; pfam12680 406425004138 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 406425004139 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 406425004140 active site 406425004141 dimer interface [polypeptide binding]; other site 406425004142 metal binding site [ion binding]; metal-binding site 406425004143 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 406425004144 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 406425004145 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 406425004146 dimer interface [polypeptide binding]; other site 406425004147 active site 406425004148 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004150 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425004151 putative effector binding pocket; other site 406425004152 dimerization interface [polypeptide binding]; other site 406425004153 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425004154 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425004155 N-terminal plug; other site 406425004156 ligand-binding site [chemical binding]; other site 406425004157 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 406425004158 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425004159 Walker A/P-loop; other site 406425004160 ATP binding site [chemical binding]; other site 406425004161 Q-loop/lid; other site 406425004162 ABC transporter signature motif; other site 406425004163 Walker B; other site 406425004164 D-loop; other site 406425004165 H-loop/switch region; other site 406425004166 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 406425004167 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 406425004168 putative ligand binding residues [chemical binding]; other site 406425004169 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 406425004170 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425004171 ABC-ATPase subunit interface; other site 406425004172 dimer interface [polypeptide binding]; other site 406425004173 putative PBP binding regions; other site 406425004174 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425004175 dimerization interface [polypeptide binding]; other site 406425004176 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 406425004177 dimer interface [polypeptide binding]; other site 406425004178 phosphorylation site [posttranslational modification] 406425004179 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425004180 ATP binding site [chemical binding]; other site 406425004181 Mg2+ binding site [ion binding]; other site 406425004182 G-X-G motif; other site 406425004183 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425004184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425004185 active site 406425004186 phosphorylation site [posttranslational modification] 406425004187 intermolecular recognition site; other site 406425004188 dimerization interface [polypeptide binding]; other site 406425004189 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425004190 DNA binding site [nucleotide binding] 406425004191 MltA-interacting protein MipA; Region: MipA; cl01504 406425004192 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 406425004193 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425004194 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425004195 catalytic residue [active] 406425004196 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 406425004197 VirB7 interaction site; other site 406425004198 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425004199 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425004200 trimer interface [polypeptide binding]; other site 406425004201 eyelet of channel; other site 406425004202 RNA polymerase sigma factor; Provisional; Region: PRK12528 406425004203 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425004204 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425004205 DNA binding residues [nucleotide binding] 406425004206 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 406425004207 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004208 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004209 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 406425004210 putative dimerization interface [polypeptide binding]; other site 406425004211 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 406425004212 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425004213 putative metal binding site [ion binding]; other site 406425004214 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 406425004215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004217 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425004218 putative dimerization interface [polypeptide binding]; other site 406425004219 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 406425004220 Citrate transporter; Region: CitMHS; pfam03600 406425004221 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 406425004222 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425004223 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 406425004224 putative active site [active] 406425004225 catalytic triad [active] 406425004226 putative dimer interface [polypeptide binding]; other site 406425004227 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 406425004228 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 406425004229 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 406425004230 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 406425004231 putative acyl-acceptor binding pocket; other site 406425004232 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 406425004233 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 406425004234 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425004235 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425004236 S-adenosylmethionine binding site [chemical binding]; other site 406425004237 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 406425004238 active site 406425004239 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 406425004240 active site 406425004241 catalytic residues [active] 406425004242 GAF domain; Region: GAF_2; pfam13185 406425004243 GAF domain; Region: GAF_3; pfam13492 406425004244 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425004245 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425004246 metal binding site [ion binding]; metal-binding site 406425004247 active site 406425004248 I-site; other site 406425004249 cellulose synthase regulator protein; Provisional; Region: PRK11114 406425004250 endo-1,4-D-glucanase; Provisional; Region: PRK11097 406425004251 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425004252 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 406425004253 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 406425004254 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 406425004255 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 406425004256 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 406425004257 DXD motif; other site 406425004258 PilZ domain; Region: PilZ; pfam07238 406425004259 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 406425004260 Pirin-related protein [General function prediction only]; Region: COG1741 406425004261 Pirin; Region: Pirin; pfam02678 406425004262 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 406425004263 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 406425004264 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 406425004265 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 406425004266 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 406425004267 Isochorismatase family; Region: Isochorismatase; pfam00857 406425004268 catalytic triad [active] 406425004269 dimer interface [polypeptide binding]; other site 406425004270 conserved cis-peptide bond; other site 406425004271 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004273 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425004274 putative effector binding pocket; other site 406425004275 dimerization interface [polypeptide binding]; other site 406425004276 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 406425004277 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 406425004278 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 406425004279 active site 406425004280 Predicted membrane protein [Function unknown]; Region: COG2259 406425004281 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425004282 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 406425004283 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 406425004284 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 406425004285 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 406425004286 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 406425004287 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 406425004288 nudix motif; other site 406425004289 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 406425004290 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425004291 active site 406425004292 HIGH motif; other site 406425004293 nucleotide binding site [chemical binding]; other site 406425004294 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425004295 active site 406425004296 KMSKS motif; other site 406425004297 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 406425004298 Serine hydrolase; Region: Ser_hydrolase; pfam06821 406425004299 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425004300 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425004301 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425004302 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 406425004303 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 406425004304 motif 1; other site 406425004305 active site 406425004306 motif 2; other site 406425004307 motif 3; other site 406425004308 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 406425004309 DHHA1 domain; Region: DHHA1; pfam02272 406425004310 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004312 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425004313 dimerization interface [polypeptide binding]; other site 406425004314 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004315 putative substrate translocation pore; other site 406425004316 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 406425004317 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 406425004318 nudix motif; other site 406425004319 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 406425004320 active site 406425004321 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425004322 TM-ABC transporter signature motif; other site 406425004323 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425004324 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425004325 TM-ABC transporter signature motif; other site 406425004326 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425004327 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425004328 Walker A/P-loop; other site 406425004329 ATP binding site [chemical binding]; other site 406425004330 Q-loop/lid; other site 406425004331 ABC transporter signature motif; other site 406425004332 Walker B; other site 406425004333 D-loop; other site 406425004334 H-loop/switch region; other site 406425004335 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425004336 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425004337 Walker A/P-loop; other site 406425004338 ATP binding site [chemical binding]; other site 406425004339 Q-loop/lid; other site 406425004340 ABC transporter signature motif; other site 406425004341 Walker B; other site 406425004342 D-loop; other site 406425004343 H-loop/switch region; other site 406425004344 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 406425004345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004346 NAD(P) binding site [chemical binding]; other site 406425004347 active site 406425004348 hypothetical protein; Provisional; Region: PRK02487 406425004349 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 406425004350 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425004351 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 406425004352 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425004353 dimer interface [polypeptide binding]; other site 406425004354 PYR/PP interface [polypeptide binding]; other site 406425004355 TPP binding site [chemical binding]; other site 406425004356 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425004357 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 406425004358 TPP-binding site [chemical binding]; other site 406425004359 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425004360 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 406425004361 substrate binding site [chemical binding]; other site 406425004362 ATP binding site [chemical binding]; other site 406425004363 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 406425004364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 406425004365 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 406425004366 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425004367 putative ligand binding site [chemical binding]; other site 406425004368 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425004369 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425004370 Walker A/P-loop; other site 406425004371 ATP binding site [chemical binding]; other site 406425004372 Q-loop/lid; other site 406425004373 ABC transporter signature motif; other site 406425004374 Walker B; other site 406425004375 D-loop; other site 406425004376 H-loop/switch region; other site 406425004377 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425004378 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425004379 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425004380 TM-ABC transporter signature motif; other site 406425004381 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425004382 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 406425004383 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 406425004384 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 406425004385 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425004386 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 406425004387 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 406425004388 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 406425004389 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425004390 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425004391 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425004392 putative active site [active] 406425004393 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 406425004394 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 406425004395 tetrameric interface [polypeptide binding]; other site 406425004396 NAD binding site [chemical binding]; other site 406425004397 catalytic residues [active] 406425004398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004400 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425004401 putative effector binding pocket; other site 406425004402 dimerization interface [polypeptide binding]; other site 406425004403 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 406425004404 CPxP motif; other site 406425004405 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425004406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425004407 active site 406425004408 phosphorylation site [posttranslational modification] 406425004409 intermolecular recognition site; other site 406425004410 dimerization interface [polypeptide binding]; other site 406425004411 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425004412 DNA binding site [nucleotide binding] 406425004413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 406425004414 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425004415 FecR protein; Region: FecR; pfam04773 406425004416 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 406425004417 CHASE2 domain; Region: CHASE2; pfam05226 406425004418 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 406425004419 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425004420 dimer interface [polypeptide binding]; other site 406425004421 phosphorylation site [posttranslational modification] 406425004422 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425004423 ATP binding site [chemical binding]; other site 406425004424 Mg2+ binding site [ion binding]; other site 406425004425 G-X-G motif; other site 406425004426 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 406425004427 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 406425004428 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 406425004429 active site 406425004430 tetramer interface; other site 406425004431 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 406425004432 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 406425004433 HIGH motif; other site 406425004434 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 406425004435 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 406425004436 active site 406425004437 KMSKS motif; other site 406425004438 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 406425004439 tRNA binding surface [nucleotide binding]; other site 406425004440 anticodon binding site; other site 406425004441 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 406425004442 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 406425004443 Part of AAA domain; Region: AAA_19; pfam13245 406425004444 Family description; Region: UvrD_C_2; pfam13538 406425004445 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 406425004446 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 406425004447 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004448 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425004449 putative substrate translocation pore; other site 406425004450 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425004451 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425004452 dimer interface [polypeptide binding]; other site 406425004453 putative CheW interface [polypeptide binding]; other site 406425004454 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 406425004455 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425004456 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425004457 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 406425004458 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425004459 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 406425004460 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425004461 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004463 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425004464 putative effector binding pocket; other site 406425004465 dimerization interface [polypeptide binding]; other site 406425004466 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 406425004467 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 406425004468 putative active site [active] 406425004469 putative metal binding site [ion binding]; other site 406425004470 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425004471 FAD binding domain; Region: FAD_binding_4; pfam01565 406425004472 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 406425004473 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 406425004474 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425004475 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 406425004476 Protein of unknown function (DUF962); Region: DUF962; cl01879 406425004477 FOG: CBS domain [General function prediction only]; Region: COG0517 406425004478 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 406425004479 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425004480 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 406425004481 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 406425004482 putative acyl-acceptor binding pocket; other site 406425004483 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 406425004484 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 406425004485 Tetramer interface [polypeptide binding]; other site 406425004486 active site 406425004487 FMN-binding site [chemical binding]; other site 406425004488 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 406425004489 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425004490 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 406425004491 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 406425004492 short chain dehydrogenase; Provisional; Region: PRK06949 406425004493 classical (c) SDRs; Region: SDR_c; cd05233 406425004494 NAD(P) binding site [chemical binding]; other site 406425004495 active site 406425004496 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 406425004497 active site 406425004498 PAS domain; Region: PAS_9; pfam13426 406425004499 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425004500 putative active site [active] 406425004501 heme pocket [chemical binding]; other site 406425004502 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425004503 DNA binding residues [nucleotide binding] 406425004504 dimerization interface [polypeptide binding]; other site 406425004505 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 406425004506 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 406425004507 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 406425004508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004509 NAD(P) binding site [chemical binding]; other site 406425004510 active site 406425004511 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 406425004512 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 406425004513 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 406425004514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004515 transcriptional activator TtdR; Provisional; Region: PRK09801 406425004516 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425004517 putative effector binding pocket; other site 406425004518 dimerization interface [polypeptide binding]; other site 406425004519 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425004520 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425004521 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 406425004522 homotrimer interaction site [polypeptide binding]; other site 406425004523 putative active site [active] 406425004524 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 406425004525 HD domain; Region: HD_4; pfam13328 406425004526 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 406425004527 synthetase active site [active] 406425004528 NTP binding site [chemical binding]; other site 406425004529 metal binding site [ion binding]; metal-binding site 406425004530 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 406425004531 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 406425004532 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 406425004533 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 406425004534 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 406425004535 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 406425004536 active site 406425004537 dimer interface [polypeptide binding]; other site 406425004538 motif 1; other site 406425004539 motif 2; other site 406425004540 motif 3; other site 406425004541 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 406425004542 anticodon binding site; other site 406425004543 translation initiation factor IF-3; Region: infC; TIGR00168 406425004544 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 406425004545 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 406425004546 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 406425004547 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 406425004548 23S rRNA binding site [nucleotide binding]; other site 406425004549 L21 binding site [polypeptide binding]; other site 406425004550 L13 binding site [polypeptide binding]; other site 406425004551 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 406425004552 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 406425004553 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 406425004554 dimer interface [polypeptide binding]; other site 406425004555 motif 1; other site 406425004556 active site 406425004557 motif 2; other site 406425004558 motif 3; other site 406425004559 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 406425004560 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 406425004561 putative tRNA-binding site [nucleotide binding]; other site 406425004562 B3/4 domain; Region: B3_4; pfam03483 406425004563 tRNA synthetase B5 domain; Region: B5; smart00874 406425004564 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 406425004565 dimer interface [polypeptide binding]; other site 406425004566 motif 1; other site 406425004567 motif 3; other site 406425004568 motif 2; other site 406425004569 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 406425004570 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 406425004571 IHF dimer interface [polypeptide binding]; other site 406425004572 IHF - DNA interface [nucleotide binding]; other site 406425004573 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 406425004574 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 406425004575 DNA binding residues [nucleotide binding] 406425004576 Methyltransferase domain; Region: Methyltransf_23; pfam13489 406425004577 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 406425004578 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 406425004579 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 406425004580 Uncharacterized conserved protein [Function unknown]; Region: COG1359 406425004581 Uncharacterized conserved protein [Function unknown]; Region: COG1434 406425004582 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 406425004583 putative active site [active] 406425004584 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 406425004585 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004586 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004587 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425004588 putative dimerization interface [polypeptide binding]; other site 406425004589 aspartate aminotransferase; Provisional; Region: PRK06108 406425004590 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425004591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425004592 homodimer interface [polypeptide binding]; other site 406425004593 catalytic residue [active] 406425004594 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 406425004595 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 406425004596 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425004597 RNA binding surface [nucleotide binding]; other site 406425004598 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 406425004599 probable active site [active] 406425004600 ribosome maturation protein RimP; Reviewed; Region: PRK00092 406425004601 Sm and related proteins; Region: Sm_like; cl00259 406425004602 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 406425004603 putative oligomer interface [polypeptide binding]; other site 406425004604 putative RNA binding site [nucleotide binding]; other site 406425004605 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 406425004606 NusA N-terminal domain; Region: NusA_N; pfam08529 406425004607 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 406425004608 RNA binding site [nucleotide binding]; other site 406425004609 homodimer interface [polypeptide binding]; other site 406425004610 NusA-like KH domain; Region: KH_5; pfam13184 406425004611 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 406425004612 G-X-X-G motif; other site 406425004613 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 406425004614 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 406425004615 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 406425004616 translation initiation factor IF-2; Region: IF-2; TIGR00487 406425004617 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 406425004618 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 406425004619 G1 box; other site 406425004620 putative GEF interaction site [polypeptide binding]; other site 406425004621 GTP/Mg2+ binding site [chemical binding]; other site 406425004622 Switch I region; other site 406425004623 G2 box; other site 406425004624 G3 box; other site 406425004625 Switch II region; other site 406425004626 G4 box; other site 406425004627 G5 box; other site 406425004628 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 406425004629 Translation-initiation factor 2; Region: IF-2; pfam11987 406425004630 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 406425004631 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 406425004632 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 406425004633 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 406425004634 RNA binding site [nucleotide binding]; other site 406425004635 active site 406425004636 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 406425004637 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425004638 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004639 putative substrate translocation pore; other site 406425004640 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004641 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 406425004642 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425004643 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425004644 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425004645 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425004646 MarR family; Region: MarR_2; cl17246 406425004647 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 406425004648 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 406425004649 G1 box; other site 406425004650 putative GEF interaction site [polypeptide binding]; other site 406425004651 GTP/Mg2+ binding site [chemical binding]; other site 406425004652 Switch I region; other site 406425004653 G2 box; other site 406425004654 G3 box; other site 406425004655 Switch II region; other site 406425004656 G4 box; other site 406425004657 G5 box; other site 406425004658 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 406425004659 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 406425004660 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 406425004661 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 406425004662 TPP-binding site [chemical binding]; other site 406425004663 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 406425004664 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425004665 E3 interaction surface; other site 406425004666 lipoyl attachment site [posttranslational modification]; other site 406425004667 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 406425004668 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 406425004669 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 406425004670 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425004671 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425004672 Predicted ATPase [General function prediction only]; Region: COG1485 406425004673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425004674 Walker B; other site 406425004675 D-loop; other site 406425004676 H-loop/switch region; other site 406425004677 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 406425004678 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 406425004679 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 406425004680 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 406425004681 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 406425004682 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 406425004683 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 406425004684 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 406425004685 TadE-like protein; Region: TadE; pfam07811 406425004686 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 406425004687 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 406425004688 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 406425004689 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425004690 AAA domain; Region: AAA_31; pfam13614 406425004691 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 406425004692 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 406425004693 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 406425004694 ATP binding site [chemical binding]; other site 406425004695 Walker A motif; other site 406425004696 hexamer interface [polypeptide binding]; other site 406425004697 Walker B motif; other site 406425004698 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 406425004699 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 406425004700 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 406425004701 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 406425004702 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 406425004703 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 406425004704 Predicted membrane protein [Function unknown]; Region: COG4655 406425004705 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 406425004706 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 406425004707 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425004708 Walker A motif; other site 406425004709 ATP binding site [chemical binding]; other site 406425004710 Walker B motif; other site 406425004711 arginine finger; other site 406425004712 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425004713 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 406425004714 bacterial Hfq-like; Region: Hfq; cd01716 406425004715 hexamer interface [polypeptide binding]; other site 406425004716 Sm1 motif; other site 406425004717 RNA binding site [nucleotide binding]; other site 406425004718 Sm2 motif; other site 406425004719 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 406425004720 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 406425004721 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 406425004722 acyl-activating enzyme (AAE) consensus motif; other site 406425004723 putative AMP binding site [chemical binding]; other site 406425004724 putative active site [active] 406425004725 putative CoA binding site [chemical binding]; other site 406425004726 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425004727 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425004728 putative sialic acid transporter; Region: 2A0112; TIGR00891 406425004729 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004730 putative substrate translocation pore; other site 406425004731 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425004732 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425004733 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 406425004734 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 406425004735 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 406425004736 Sulfate transporter family; Region: Sulfate_transp; pfam00916 406425004737 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 406425004738 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 406425004739 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425004740 putative substrate binding site [chemical binding]; other site 406425004741 putative ATP binding site [chemical binding]; other site 406425004742 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 406425004743 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425004744 putative ligand binding site [chemical binding]; other site 406425004745 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425004746 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425004747 TM-ABC transporter signature motif; other site 406425004748 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425004749 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425004750 Walker A/P-loop; other site 406425004751 ATP binding site [chemical binding]; other site 406425004752 Q-loop/lid; other site 406425004753 ABC transporter signature motif; other site 406425004754 Walker B; other site 406425004755 D-loop; other site 406425004756 H-loop/switch region; other site 406425004757 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425004758 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 406425004759 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 406425004760 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 406425004761 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425004762 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425004763 substrate binding pocket [chemical binding]; other site 406425004764 membrane-bound complex binding site; other site 406425004765 hinge residues; other site 406425004766 ribonuclease R; Region: RNase_R; TIGR02063 406425004767 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 406425004768 RNB domain; Region: RNB; pfam00773 406425004769 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 406425004770 RNA binding site [nucleotide binding]; other site 406425004771 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 406425004772 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 406425004773 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 406425004774 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 406425004775 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 406425004776 amidase catalytic site [active] 406425004777 Zn binding residues [ion binding]; other site 406425004778 substrate binding site [chemical binding]; other site 406425004779 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 406425004780 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 406425004781 tetramer (dimer of dimers) interface [polypeptide binding]; other site 406425004782 active site 406425004783 dimer interface [polypeptide binding]; other site 406425004784 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425004785 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425004786 DNA-binding site [nucleotide binding]; DNA binding site 406425004787 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 406425004788 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 406425004789 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 406425004790 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425004791 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004792 dimer interface [polypeptide binding]; other site 406425004793 conserved gate region; other site 406425004794 putative PBP binding loops; other site 406425004795 ABC-ATPase subunit interface; other site 406425004796 cystine transporter subunit; Provisional; Region: PRK11260 406425004797 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425004798 substrate binding pocket [chemical binding]; other site 406425004799 membrane-bound complex binding site; other site 406425004800 hinge residues; other site 406425004801 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 406425004802 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 406425004803 active site 406425004804 catalytic residues [active] 406425004805 FMN binding site [chemical binding]; other site 406425004806 quinone interaction residues [chemical binding]; other site 406425004807 substrate binding site [chemical binding]; other site 406425004808 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 406425004809 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 406425004810 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 406425004811 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 406425004812 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 406425004813 nudix motif; other site 406425004814 hypothetical protein; Provisional; Region: PRK02487 406425004815 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 406425004816 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 406425004817 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425004818 substrate binding site [chemical binding]; other site 406425004819 oxyanion hole (OAH) forming residues; other site 406425004820 trimer interface [polypeptide binding]; other site 406425004821 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 406425004822 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 406425004823 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425004824 active site 406425004825 dimer interface [polypeptide binding]; other site 406425004826 non-prolyl cis peptide bond; other site 406425004827 insertion regions; other site 406425004828 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425004829 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004830 dimer interface [polypeptide binding]; other site 406425004831 conserved gate region; other site 406425004832 putative PBP binding loops; other site 406425004833 ABC-ATPase subunit interface; other site 406425004834 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 406425004835 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425004836 Walker A/P-loop; other site 406425004837 ATP binding site [chemical binding]; other site 406425004838 Q-loop/lid; other site 406425004839 ABC transporter signature motif; other site 406425004840 Walker B; other site 406425004841 D-loop; other site 406425004842 H-loop/switch region; other site 406425004843 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 406425004844 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 406425004845 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 406425004846 FMN binding site [chemical binding]; other site 406425004847 active site 406425004848 catalytic residues [active] 406425004849 substrate binding site [chemical binding]; other site 406425004850 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425004851 active site 406425004852 Int/Topo IB signature motif; other site 406425004853 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 406425004854 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 406425004855 dimerization interface [polypeptide binding]; other site 406425004856 mannose binding site [chemical binding]; other site 406425004857 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 406425004858 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 406425004859 dimerization interface [polypeptide binding]; other site 406425004860 mannose binding site [chemical binding]; other site 406425004861 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 406425004862 dimerization interface [polypeptide binding]; other site 406425004863 D-mannose binding lectin; Region: B_lectin; pfam01453 406425004864 mannose binding site [chemical binding]; other site 406425004865 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 406425004866 dimerization interface [polypeptide binding]; other site 406425004867 D-mannose binding lectin; Region: B_lectin; pfam01453 406425004868 mannose binding site [chemical binding]; other site 406425004869 Methyltransferase domain; Region: Methyltransf_23; pfam13489 406425004870 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425004871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425004872 Coenzyme A binding pocket [chemical binding]; other site 406425004873 Family of unknown function (DUF695); Region: DUF695; pfam05117 406425004874 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 406425004875 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 406425004876 putative dimer interface [polypeptide binding]; other site 406425004877 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425004878 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 406425004879 PLD-like domain; Region: PLDc_2; pfam13091 406425004880 putative active site [active] 406425004881 catalytic site [active] 406425004882 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425004883 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 406425004884 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425004885 CoenzymeA binding site [chemical binding]; other site 406425004886 subunit interaction site [polypeptide binding]; other site 406425004887 PHB binding site; other site 406425004888 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425004889 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425004890 active site 406425004891 catalytic tetrad [active] 406425004892 citrate-proton symporter; Provisional; Region: PRK15075 406425004893 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004894 putative substrate translocation pore; other site 406425004895 hypothetical protein; Provisional; Region: PRK07079 406425004896 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 406425004897 metal binding site [ion binding]; metal-binding site 406425004898 putative dimer interface [polypeptide binding]; other site 406425004899 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004900 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004901 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425004902 dimerization interface [polypeptide binding]; other site 406425004903 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 406425004904 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 406425004905 active site residue [active] 406425004906 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 406425004907 Predicted permease; Region: DUF318; cl17795 406425004908 ABC-2 type transporter; Region: ABC2_membrane; cl17235 406425004909 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 406425004910 nodulation ABC transporter NodI; Provisional; Region: PRK13537 406425004911 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 406425004912 Walker A/P-loop; other site 406425004913 ATP binding site [chemical binding]; other site 406425004914 Q-loop/lid; other site 406425004915 ABC transporter signature motif; other site 406425004916 Walker B; other site 406425004917 D-loop; other site 406425004918 H-loop/switch region; other site 406425004919 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425004920 Ligand Binding Site [chemical binding]; other site 406425004921 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 406425004922 LexA repressor; Validated; Region: PRK00215 406425004923 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 406425004924 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 406425004925 Catalytic site [active] 406425004926 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425004927 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 406425004928 substrate binding pocket [chemical binding]; other site 406425004929 membrane-bound complex binding site; other site 406425004930 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 406425004931 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004932 dimer interface [polypeptide binding]; other site 406425004933 conserved gate region; other site 406425004934 putative PBP binding loops; other site 406425004935 ABC-ATPase subunit interface; other site 406425004936 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 406425004937 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004938 dimer interface [polypeptide binding]; other site 406425004939 conserved gate region; other site 406425004940 putative PBP binding loops; other site 406425004941 ABC-ATPase subunit interface; other site 406425004942 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 406425004943 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 406425004944 Walker A/P-loop; other site 406425004945 ATP binding site [chemical binding]; other site 406425004946 Q-loop/lid; other site 406425004947 ABC transporter signature motif; other site 406425004948 Walker B; other site 406425004949 D-loop; other site 406425004950 H-loop/switch region; other site 406425004951 TOBE-like domain; Region: TOBE_3; pfam12857 406425004952 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 406425004953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425004954 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 406425004955 substrate binding site [chemical binding]; other site 406425004956 dimerization interface [polypeptide binding]; other site 406425004957 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 406425004958 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425004959 ligand binding site [chemical binding]; other site 406425004960 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425004961 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425004962 Walker A/P-loop; other site 406425004963 ATP binding site [chemical binding]; other site 406425004964 Q-loop/lid; other site 406425004965 ABC transporter signature motif; other site 406425004966 Walker B; other site 406425004967 D-loop; other site 406425004968 H-loop/switch region; other site 406425004969 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425004970 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 406425004971 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425004972 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425004973 TM-ABC transporter signature motif; other site 406425004974 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425004975 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425004976 DNA binding site [nucleotide binding] 406425004977 domain linker motif; other site 406425004978 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 406425004979 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425004980 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 406425004981 substrate binding site [chemical binding]; other site 406425004982 dimer interface [polypeptide binding]; other site 406425004983 ATP binding site [chemical binding]; other site 406425004984 Tar ligand binding domain homologue; Region: TarH; pfam02203 406425004985 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425004986 dimerization interface [polypeptide binding]; other site 406425004987 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425004988 dimer interface [polypeptide binding]; other site 406425004989 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 406425004990 putative CheW interface [polypeptide binding]; other site 406425004991 PrkA family serine protein kinase; Provisional; Region: PRK15455 406425004992 AAA ATPase domain; Region: AAA_16; pfam13191 406425004993 Walker A motif; other site 406425004994 ATP binding site [chemical binding]; other site 406425004995 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 406425004996 hypothetical protein; Provisional; Region: PRK05325 406425004997 SpoVR family protein; Provisional; Region: PRK11767 406425004998 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 406425004999 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 406425005000 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005001 putative substrate translocation pore; other site 406425005002 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425005003 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425005004 substrate binding pocket [chemical binding]; other site 406425005005 membrane-bound complex binding site; other site 406425005006 hinge residues; other site 406425005007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005008 dimer interface [polypeptide binding]; other site 406425005009 conserved gate region; other site 406425005010 putative PBP binding loops; other site 406425005011 ABC-ATPase subunit interface; other site 406425005012 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005013 dimer interface [polypeptide binding]; other site 406425005014 conserved gate region; other site 406425005015 putative PBP binding loops; other site 406425005016 ABC-ATPase subunit interface; other site 406425005017 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 406425005018 Peptidase family M23; Region: Peptidase_M23; pfam01551 406425005019 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 406425005020 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425005021 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 406425005022 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 406425005023 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425005024 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425005025 multidrug efflux protein; Reviewed; Region: PRK09577 406425005026 Protein export membrane protein; Region: SecD_SecF; cl14618 406425005027 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425005028 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 406425005029 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 406425005030 PapC N-terminal domain; Region: PapC_N; pfam13954 406425005031 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 406425005032 PapC C-terminal domain; Region: PapC_C; pfam13953 406425005033 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 406425005034 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 406425005035 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 406425005036 Fimbrial protein; Region: Fimbrial; pfam00419 406425005037 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 406425005038 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425005039 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 406425005040 MbtH-like protein; Region: MbtH; cl01279 406425005041 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425005042 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 406425005043 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425005044 Walker A/P-loop; other site 406425005045 ATP binding site [chemical binding]; other site 406425005046 Q-loop/lid; other site 406425005047 ABC transporter signature motif; other site 406425005048 Walker B; other site 406425005049 D-loop; other site 406425005050 H-loop/switch region; other site 406425005051 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 406425005052 FecCD transport family; Region: FecCD; pfam01032 406425005053 ABC-ATPase subunit interface; other site 406425005054 dimer interface [polypeptide binding]; other site 406425005055 putative PBP binding regions; other site 406425005056 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425005057 ABC-ATPase subunit interface; other site 406425005058 dimer interface [polypeptide binding]; other site 406425005059 putative PBP binding regions; other site 406425005060 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 406425005061 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 406425005062 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 406425005063 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 406425005064 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 406425005065 siderophore binding site; other site 406425005066 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 406425005067 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 406425005068 Walker A/P-loop; other site 406425005069 ATP binding site [chemical binding]; other site 406425005070 Q-loop/lid; other site 406425005071 ABC transporter signature motif; other site 406425005072 Walker B; other site 406425005073 D-loop; other site 406425005074 H-loop/switch region; other site 406425005075 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 406425005076 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 406425005077 acyl-activating enzyme (AAE) consensus motif; other site 406425005078 AMP binding site [chemical binding]; other site 406425005079 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425005080 Condensation domain; Region: Condensation; pfam00668 406425005081 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 406425005082 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 406425005083 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425005084 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 406425005085 acyl-activating enzyme (AAE) consensus motif; other site 406425005086 AMP binding site [chemical binding]; other site 406425005087 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425005088 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 406425005089 Condensation domain; Region: Condensation; pfam00668 406425005090 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 406425005091 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 406425005092 acyl-activating enzyme (AAE) consensus motif; other site 406425005093 AMP binding site [chemical binding]; other site 406425005094 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425005095 Condensation domain; Region: Condensation; pfam00668 406425005096 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 406425005097 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 406425005098 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 406425005099 acyl-activating enzyme (AAE) consensus motif; other site 406425005100 AMP binding site [chemical binding]; other site 406425005101 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425005102 Condensation domain; Region: Condensation; pfam00668 406425005103 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 406425005104 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 406425005105 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425005106 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 406425005107 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 406425005108 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 406425005109 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425005110 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 406425005111 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425005112 N-terminal plug; other site 406425005113 ligand-binding site [chemical binding]; other site 406425005114 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 406425005115 catalytic site [active] 406425005116 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 406425005117 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 406425005118 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 406425005119 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 406425005120 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425005121 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425005122 metal binding site [ion binding]; metal-binding site 406425005123 putative dimer interface [polypeptide binding]; other site 406425005124 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 406425005125 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 406425005126 catalytic triad [active] 406425005127 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 406425005128 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 406425005129 homodimer interface [polypeptide binding]; other site 406425005130 Walker A motif; other site 406425005131 ATP binding site [chemical binding]; other site 406425005132 hydroxycobalamin binding site [chemical binding]; other site 406425005133 Walker B motif; other site 406425005134 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 406425005135 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 406425005136 active site 406425005137 SAM binding site [chemical binding]; other site 406425005138 homodimer interface [polypeptide binding]; other site 406425005139 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425005140 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425005141 N-terminal plug; other site 406425005142 ligand-binding site [chemical binding]; other site 406425005143 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 406425005144 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 406425005145 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 406425005146 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 406425005147 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 406425005148 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 406425005149 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 406425005150 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005151 Walker A motif; other site 406425005152 ATP binding site [chemical binding]; other site 406425005153 Walker B motif; other site 406425005154 arginine finger; other site 406425005155 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 406425005156 metal ion-dependent adhesion site (MIDAS); other site 406425005157 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 406425005158 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425005159 binding surface 406425005160 TPR motif; other site 406425005161 Tetratricopeptide repeat; Region: TPR_12; pfam13424 406425005162 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425005163 binding surface 406425005164 TPR motif; other site 406425005165 Tetratricopeptide repeat; Region: TPR_12; pfam13424 406425005166 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425005167 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 406425005168 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 406425005169 active site 406425005170 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 406425005171 nudix motif; other site 406425005172 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425005173 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425005174 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 406425005175 Citrate transporter; Region: CitMHS; pfam03600 406425005176 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425005177 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425005178 active site 406425005179 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 406425005180 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425005181 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425005182 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 406425005183 active site 406425005184 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 406425005185 aromatic chitin/cellulose binding site residues [chemical binding]; other site 406425005186 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 406425005187 aromatic chitin/cellulose binding site residues [chemical binding]; other site 406425005188 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 406425005189 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 406425005190 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 406425005191 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 406425005192 active site 406425005193 SAM binding site [chemical binding]; other site 406425005194 homodimer interface [polypeptide binding]; other site 406425005195 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 406425005196 active site 406425005197 SAM binding site [chemical binding]; other site 406425005198 homodimer interface [polypeptide binding]; other site 406425005199 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 406425005200 Precorrin-8X methylmutase; Region: CbiC; pfam02570 406425005201 precorrin-3B synthase; Region: CobG; TIGR02435 406425005202 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425005203 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425005204 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 406425005205 active site 406425005206 putative homodimer interface [polypeptide binding]; other site 406425005207 SAM binding site [chemical binding]; other site 406425005208 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 406425005209 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 406425005210 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 406425005211 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 406425005212 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 406425005213 active site 406425005214 SAM binding site [chemical binding]; other site 406425005215 homodimer interface [polypeptide binding]; other site 406425005216 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 406425005217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005218 putative substrate translocation pore; other site 406425005219 MarR family; Region: MarR_2; cl17246 406425005220 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425005221 Ion channel; Region: Ion_trans_2; pfam07885 406425005222 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425005223 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 406425005224 C-terminal domain interface [polypeptide binding]; other site 406425005225 GSH binding site (G-site) [chemical binding]; other site 406425005226 dimer interface [polypeptide binding]; other site 406425005227 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 406425005228 dimer interface [polypeptide binding]; other site 406425005229 N-terminal domain interface [polypeptide binding]; other site 406425005230 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 406425005231 hypothetical protein; Provisional; Region: PRK11622 406425005232 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 406425005233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425005234 Walker A/P-loop; other site 406425005235 ATP binding site [chemical binding]; other site 406425005236 Q-loop/lid; other site 406425005237 ABC transporter signature motif; other site 406425005238 Walker B; other site 406425005239 D-loop; other site 406425005240 H-loop/switch region; other site 406425005241 TOBE domain; Region: TOBE_2; pfam08402 406425005242 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 406425005243 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005244 dimer interface [polypeptide binding]; other site 406425005245 conserved gate region; other site 406425005246 putative PBP binding loops; other site 406425005247 ABC-ATPase subunit interface; other site 406425005248 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425005249 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005250 dimer interface [polypeptide binding]; other site 406425005251 conserved gate region; other site 406425005252 putative PBP binding loops; other site 406425005253 ABC-ATPase subunit interface; other site 406425005254 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 406425005255 glycerate dehydrogenase; Provisional; Region: PRK06487 406425005256 putative ligand binding site [chemical binding]; other site 406425005257 putative NAD binding site [chemical binding]; other site 406425005258 catalytic site [active] 406425005259 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425005260 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425005261 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 406425005262 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 406425005263 active site 406425005264 catalytic residues [active] 406425005265 metal binding site [ion binding]; metal-binding site 406425005266 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 406425005267 dimer interface [polypeptide binding]; other site 406425005268 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425005269 metal binding site [ion binding]; metal-binding site 406425005270 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 406425005271 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425005272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425005273 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 406425005274 putative dimerization interface [polypeptide binding]; other site 406425005275 benzoate transport; Region: 2A0115; TIGR00895 406425005276 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005277 putative substrate translocation pore; other site 406425005278 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005279 putative substrate translocation pore; other site 406425005280 Uncharacterized conserved protein [Function unknown]; Region: COG3791 406425005281 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425005282 MarR family; Region: MarR; pfam01047 406425005283 Predicted acetyltransferase [General function prediction only]; Region: COG3393 406425005284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425005285 Coenzyme A binding pocket [chemical binding]; other site 406425005286 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425005287 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425005288 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 406425005289 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 406425005290 Homeodomain-like domain; Region: HTH_23; pfam13384 406425005291 Winged helix-turn helix; Region: HTH_29; pfam13551 406425005292 Homeodomain-like domain; Region: HTH_32; pfam13565 406425005293 Integrase core domain; Region: rve; pfam00665 406425005294 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425005295 sequence-specific DNA binding site [nucleotide binding]; other site 406425005296 salt bridge; other site 406425005297 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425005298 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425005299 ligand binding site [chemical binding]; other site 406425005300 flexible hinge region; other site 406425005301 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 406425005302 non-specific DNA interactions [nucleotide binding]; other site 406425005303 DNA binding site [nucleotide binding] 406425005304 sequence specific DNA binding site [nucleotide binding]; other site 406425005305 putative cAMP binding site [chemical binding]; other site 406425005306 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 406425005307 PRC-barrel domain; Region: PRC; pfam05239 406425005308 PRC-barrel domain; Region: PRC; pfam05239 406425005309 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425005310 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425005311 ligand binding site [chemical binding]; other site 406425005312 flexible hinge region; other site 406425005313 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 406425005314 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 406425005315 Domain of unknown function DUF20; Region: UPF0118; pfam01594 406425005316 CsbD-like; Region: CsbD; pfam05532 406425005317 PRC-barrel domain; Region: PRC; pfam05239 406425005318 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 406425005319 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425005320 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 406425005321 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425005322 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425005323 ligand binding site [chemical binding]; other site 406425005324 flexible hinge region; other site 406425005325 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 406425005326 PRC-barrel domain; Region: PRC; pfam05239 406425005327 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 406425005328 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 406425005329 TPP-binding site [chemical binding]; other site 406425005330 dimer interface [polypeptide binding]; other site 406425005331 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425005332 PYR/PP interface [polypeptide binding]; other site 406425005333 dimer interface [polypeptide binding]; other site 406425005334 TPP binding site [chemical binding]; other site 406425005335 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425005336 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 406425005337 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 406425005338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 406425005339 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 406425005340 CsbD-like; Region: CsbD; pfam05532 406425005341 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425005342 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 406425005343 Di-iron ligands [ion binding]; other site 406425005344 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 406425005345 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 406425005346 Putative glucoamylase; Region: Glycoamylase; pfam10091 406425005347 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 406425005348 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 406425005349 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 406425005350 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 406425005351 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 406425005352 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425005353 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425005354 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425005355 putative effector binding pocket; other site 406425005356 putative dimerization interface [polypeptide binding]; other site 406425005357 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 406425005358 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425005359 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 406425005360 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 406425005361 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 406425005362 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425005363 Protein export membrane protein; Region: SecD_SecF; cl14618 406425005364 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 406425005365 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425005366 Walker A/P-loop; other site 406425005367 ATP binding site [chemical binding]; other site 406425005368 Q-loop/lid; other site 406425005369 ABC transporter signature motif; other site 406425005370 Walker B; other site 406425005371 D-loop; other site 406425005372 H-loop/switch region; other site 406425005373 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425005374 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425005375 Walker A/P-loop; other site 406425005376 ATP binding site [chemical binding]; other site 406425005377 Q-loop/lid; other site 406425005378 ABC transporter signature motif; other site 406425005379 Walker B; other site 406425005380 D-loop; other site 406425005381 H-loop/switch region; other site 406425005382 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425005383 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 406425005384 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 406425005385 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005386 dimer interface [polypeptide binding]; other site 406425005387 conserved gate region; other site 406425005388 putative PBP binding loops; other site 406425005389 ABC-ATPase subunit interface; other site 406425005390 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 406425005391 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005392 dimer interface [polypeptide binding]; other site 406425005393 conserved gate region; other site 406425005394 putative PBP binding loops; other site 406425005395 ABC-ATPase subunit interface; other site 406425005396 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 406425005397 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 406425005398 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 406425005399 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 406425005400 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 406425005401 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 406425005402 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425005403 non-specific DNA binding site [nucleotide binding]; other site 406425005404 salt bridge; other site 406425005405 sequence-specific DNA binding site [nucleotide binding]; other site 406425005406 Cupin domain; Region: Cupin_2; pfam07883 406425005407 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 406425005408 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 406425005409 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 406425005410 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 406425005411 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 406425005412 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 406425005413 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 406425005414 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 406425005415 putative deacylase active site [active] 406425005416 YciI-like protein; Reviewed; Region: PRK12866 406425005417 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 406425005418 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 406425005419 oligomer interface [polypeptide binding]; other site 406425005420 metal binding site [ion binding]; metal-binding site 406425005421 metal binding site [ion binding]; metal-binding site 406425005422 putative Cl binding site [ion binding]; other site 406425005423 basic sphincter; other site 406425005424 hydrophobic gate; other site 406425005425 periplasmic entrance; other site 406425005426 AAA domain; Region: AAA_33; pfam13671 406425005427 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 406425005428 active site 406425005429 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 406425005430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005431 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425005432 AsnC family; Region: AsnC_trans_reg; pfam01037 406425005433 LTXXQ motif family protein; Region: LTXXQ; pfam07813 406425005434 PGDYG protein; Region: PGDYG; pfam14083 406425005435 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 406425005436 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 406425005437 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425005438 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425005439 DNA binding site [nucleotide binding] 406425005440 domain linker motif; other site 406425005441 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 406425005442 putative ligand binding site [chemical binding]; other site 406425005443 putative dimerization interface [polypeptide binding]; other site 406425005444 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 406425005445 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 406425005446 dimerization interface [polypeptide binding]; other site 406425005447 ligand binding site [chemical binding]; other site 406425005448 NADP binding site [chemical binding]; other site 406425005449 catalytic site [active] 406425005450 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005451 D-galactonate transporter; Region: 2A0114; TIGR00893 406425005452 putative substrate translocation pore; other site 406425005453 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425005454 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 406425005455 substrate binding site [chemical binding]; other site 406425005456 ATP binding site [chemical binding]; other site 406425005457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425005458 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 406425005459 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 406425005460 putative dimerization interface [polypeptide binding]; other site 406425005461 Predicted membrane protein [Function unknown]; Region: COG2855 406425005462 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 406425005463 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 406425005464 Cl- selectivity filter; other site 406425005465 Cl- binding residues [ion binding]; other site 406425005466 pore gating glutamate residue; other site 406425005467 dimer interface [polypeptide binding]; other site 406425005468 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 406425005469 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425005470 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425005471 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425005472 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425005473 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425005474 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425005475 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 406425005476 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 406425005477 DNA binding residues [nucleotide binding] 406425005478 putative dimer interface [polypeptide binding]; other site 406425005479 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 406425005480 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 406425005481 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425005482 sequence-specific DNA binding site [nucleotide binding]; other site 406425005483 salt bridge; other site 406425005484 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 406425005485 PAS fold; Region: PAS_4; pfam08448 406425005486 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425005487 putative active site [active] 406425005488 heme pocket [chemical binding]; other site 406425005489 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005490 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 406425005491 Walker A motif; other site 406425005492 ATP binding site [chemical binding]; other site 406425005493 Walker B motif; other site 406425005494 arginine finger; other site 406425005495 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 406425005496 Putative phosphatase (DUF442); Region: DUF442; cl17385 406425005497 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 406425005498 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425005499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005500 dimer interface [polypeptide binding]; other site 406425005501 conserved gate region; other site 406425005502 putative PBP binding loops; other site 406425005503 ABC-ATPase subunit interface; other site 406425005504 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005505 dimer interface [polypeptide binding]; other site 406425005506 conserved gate region; other site 406425005507 putative PBP binding loops; other site 406425005508 ABC-ATPase subunit interface; other site 406425005509 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 406425005510 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425005511 Walker A/P-loop; other site 406425005512 ATP binding site [chemical binding]; other site 406425005513 Q-loop/lid; other site 406425005514 ABC transporter signature motif; other site 406425005515 Walker B; other site 406425005516 D-loop; other site 406425005517 H-loop/switch region; other site 406425005518 TOBE domain; Region: TOBE_2; pfam08402 406425005519 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 406425005520 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 406425005521 Predicted Fe-S protein [General function prediction only]; Region: COG3313 406425005522 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 406425005523 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 406425005524 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425005525 FMN binding site [chemical binding]; other site 406425005526 substrate binding site [chemical binding]; other site 406425005527 putative catalytic residue [active] 406425005528 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 406425005529 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425005530 NAD binding site [chemical binding]; other site 406425005531 catalytic residues [active] 406425005532 hypothetical protein; Provisional; Region: PRK11667 406425005533 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 406425005534 NodB motif; other site 406425005535 active site 406425005536 catalytic site [active] 406425005537 metal binding site [ion binding]; metal-binding site 406425005538 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 406425005539 Phosphotransferase enzyme family; Region: APH; pfam01636 406425005540 active site 406425005541 substrate binding site [chemical binding]; other site 406425005542 ATP binding site [chemical binding]; other site 406425005543 Cephalosporin hydroxylase; Region: CmcI; pfam04989 406425005544 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 406425005545 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 406425005546 active site 406425005547 TDP-binding site; other site 406425005548 acceptor substrate-binding pocket; other site 406425005549 homodimer interface [polypeptide binding]; other site 406425005550 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 406425005551 Asparagine synthase; Region: Asn_synthase; pfam00733 406425005552 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425005553 FeS/SAM binding site; other site 406425005554 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 406425005555 substrate binding site [chemical binding]; other site 406425005556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425005557 Transposase; Region: HTH_Tnp_1; pfam01527 406425005558 HTH-like domain; Region: HTH_21; pfam13276 406425005559 Integrase core domain; Region: rve; pfam00665 406425005560 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425005561 MULE transposase domain; Region: MULE; pfam10551 406425005562 Uncharacterized conserved protein (DUF2290); Region: DUF2290; cl02396 406425005563 Transposase; Region: HTH_Tnp_1; cl17663 406425005564 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425005565 IS2 transposase TnpB; Reviewed; Region: PRK09409 406425005566 HTH-like domain; Region: HTH_21; pfam13276 406425005567 Integrase core domain; Region: rve; pfam00665 406425005568 Integrase core domain; Region: rve_3; pfam13683 406425005569 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425005570 MULE transposase domain; Region: MULE; pfam10551 406425005571 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 406425005572 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 406425005573 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 406425005574 ABC transporter; Region: ABC_tran_2; pfam12848 406425005575 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 406425005576 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 406425005577 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 406425005578 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 406425005579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425005580 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 406425005581 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425005582 Walker A/P-loop; other site 406425005583 Walker A/P-loop; other site 406425005584 ATP binding site [chemical binding]; other site 406425005585 Q-loop/lid; other site 406425005586 ABC transporter signature motif; other site 406425005587 Walker B; other site 406425005588 D-loop; other site 406425005589 H-loop/switch region; other site 406425005590 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 406425005591 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 406425005592 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 406425005593 putative NAD(P) binding site [chemical binding]; other site 406425005594 dimer interface [polypeptide binding]; other site 406425005595 transcriptional activator TtdR; Provisional; Region: PRK09801 406425005596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425005597 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425005598 putative effector binding pocket; other site 406425005599 dimerization interface [polypeptide binding]; other site 406425005600 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 406425005601 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 406425005602 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425005603 motif II; other site 406425005604 cystathionine beta-lyase; Provisional; Region: PRK07050 406425005605 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425005606 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425005607 catalytic residue [active] 406425005608 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 406425005609 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425005610 substrate binding site [chemical binding]; other site 406425005611 ATP binding site [chemical binding]; other site 406425005612 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 406425005613 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 406425005614 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425005615 FeS/SAM binding site; other site 406425005616 TRAM domain; Region: TRAM; cl01282 406425005617 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 406425005618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 406425005619 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 406425005620 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 406425005621 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 406425005622 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 406425005623 NAD(P) binding site [chemical binding]; other site 406425005624 homotetramer interface [polypeptide binding]; other site 406425005625 homodimer interface [polypeptide binding]; other site 406425005626 active site 406425005627 putative acyltransferase; Provisional; Region: PRK05790 406425005628 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425005629 dimer interface [polypeptide binding]; other site 406425005630 active site 406425005631 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 406425005632 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 406425005633 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 406425005634 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 406425005635 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 406425005636 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425005637 RNA binding surface [nucleotide binding]; other site 406425005638 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 406425005639 active site 406425005640 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 406425005641 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 406425005642 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 406425005643 DEAD_2; Region: DEAD_2; pfam06733 406425005644 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 406425005645 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 406425005646 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 406425005647 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 406425005648 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 406425005649 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 406425005650 RNA binding site [nucleotide binding]; other site 406425005651 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 406425005652 potassium uptake protein; Region: kup; TIGR00794 406425005653 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 406425005654 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425005655 active site 406425005656 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 406425005657 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 406425005658 GDP-binding site [chemical binding]; other site 406425005659 ACT binding site; other site 406425005660 IMP binding site; other site 406425005661 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 406425005662 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 406425005663 dimer interface [polypeptide binding]; other site 406425005664 motif 1; other site 406425005665 active site 406425005666 motif 2; other site 406425005667 motif 3; other site 406425005668 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 406425005669 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 406425005670 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 406425005671 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 406425005672 HflK protein; Region: hflK; TIGR01933 406425005673 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 406425005674 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 406425005675 HflX GTPase family; Region: HflX; cd01878 406425005676 G1 box; other site 406425005677 GTP/Mg2+ binding site [chemical binding]; other site 406425005678 Switch I region; other site 406425005679 G2 box; other site 406425005680 G3 box; other site 406425005681 Switch II region; other site 406425005682 G4 box; other site 406425005683 G5 box; other site 406425005684 bacterial Hfq-like; Region: Hfq; cd01716 406425005685 hexamer interface [polypeptide binding]; other site 406425005686 Sm1 motif; other site 406425005687 RNA binding site [nucleotide binding]; other site 406425005688 Sm2 motif; other site 406425005689 GTP-binding protein Der; Reviewed; Region: PRK00093 406425005690 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 406425005691 G1 box; other site 406425005692 GTP/Mg2+ binding site [chemical binding]; other site 406425005693 Switch I region; other site 406425005694 G2 box; other site 406425005695 Switch II region; other site 406425005696 G3 box; other site 406425005697 G4 box; other site 406425005698 G5 box; other site 406425005699 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 406425005700 G1 box; other site 406425005701 GTP/Mg2+ binding site [chemical binding]; other site 406425005702 Switch I region; other site 406425005703 G2 box; other site 406425005704 G3 box; other site 406425005705 Switch II region; other site 406425005706 G4 box; other site 406425005707 G5 box; other site 406425005708 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 406425005709 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 406425005710 Trp docking motif [polypeptide binding]; other site 406425005711 active site 406425005712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 406425005713 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 406425005714 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 406425005715 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 406425005716 dimer interface [polypeptide binding]; other site 406425005717 motif 1; other site 406425005718 active site 406425005719 motif 2; other site 406425005720 motif 3; other site 406425005721 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 406425005722 anticodon binding site; other site 406425005723 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 406425005724 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 406425005725 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 406425005726 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425005727 non-specific DNA binding site [nucleotide binding]; other site 406425005728 salt bridge; other site 406425005729 sequence-specific DNA binding site [nucleotide binding]; other site 406425005730 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 406425005731 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 406425005732 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425005733 FeS/SAM binding site; other site 406425005734 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 406425005735 active site 406425005736 multimer interface [polypeptide binding]; other site 406425005737 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 406425005738 YccA-like proteins; Region: YccA_like; cd10433 406425005739 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 406425005740 TRAM domain; Region: TRAM; cl01282 406425005741 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425005742 S-adenosylmethionine binding site [chemical binding]; other site 406425005743 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 406425005744 putative catalytic site [active] 406425005745 putative metal binding site [ion binding]; other site 406425005746 putative phosphate binding site [ion binding]; other site 406425005747 putative catalytic site [active] 406425005748 putative phosphate binding site [ion binding]; other site 406425005749 putative metal binding site [ion binding]; other site 406425005750 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 406425005751 active site 406425005752 catalytic site [active] 406425005753 substrate binding site [chemical binding]; other site 406425005754 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 406425005755 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 406425005756 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425005757 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425005758 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425005759 DNA binding residues [nucleotide binding] 406425005760 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425005761 Peptidase family M23; Region: Peptidase_M23; pfam01551 406425005762 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 406425005763 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425005764 S-adenosylmethionine binding site [chemical binding]; other site 406425005765 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 406425005766 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425005767 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425005768 recombination protein RecR; Reviewed; Region: recR; PRK00076 406425005769 RecR protein; Region: RecR; pfam02132 406425005770 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 406425005771 putative active site [active] 406425005772 putative metal-binding site [ion binding]; other site 406425005773 tetramer interface [polypeptide binding]; other site 406425005774 hypothetical protein; Validated; Region: PRK00153 406425005775 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 406425005776 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005777 Walker A motif; other site 406425005778 ATP binding site [chemical binding]; other site 406425005779 Walker B motif; other site 406425005780 arginine finger; other site 406425005781 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 406425005782 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425005783 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425005784 catalytic residues [active] 406425005785 transcription termination factor Rho; Provisional; Region: rho; PRK09376 406425005786 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 406425005787 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 406425005788 RNA binding site [nucleotide binding]; other site 406425005789 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 406425005790 multimer interface [polypeptide binding]; other site 406425005791 Walker A motif; other site 406425005792 ATP binding site [chemical binding]; other site 406425005793 Walker B motif; other site 406425005794 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 406425005795 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 406425005796 DNA binding residues [nucleotide binding] 406425005797 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005798 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425005799 putative substrate translocation pore; other site 406425005800 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 406425005801 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 406425005802 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 406425005803 multidrug efflux protein; Reviewed; Region: PRK01766 406425005804 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 406425005805 cation binding site [ion binding]; other site 406425005806 lipoyl synthase; Provisional; Region: PRK05481 406425005807 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 406425005808 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425005809 E3 interaction surface; other site 406425005810 lipoyl attachment site [posttranslational modification]; other site 406425005811 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 406425005812 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 406425005813 alpha subunit interface [polypeptide binding]; other site 406425005814 TPP binding site [chemical binding]; other site 406425005815 heterodimer interface [polypeptide binding]; other site 406425005816 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425005817 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 406425005818 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 406425005819 tetramer interface [polypeptide binding]; other site 406425005820 TPP-binding site [chemical binding]; other site 406425005821 heterodimer interface [polypeptide binding]; other site 406425005822 phosphorylation loop region [posttranslational modification] 406425005823 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 406425005824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005825 NAD(P) binding site [chemical binding]; other site 406425005826 active site 406425005827 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 406425005828 ATP-NAD kinase; Region: NAD_kinase; pfam01513 406425005829 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 406425005830 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005831 Walker A motif; other site 406425005832 ATP binding site [chemical binding]; other site 406425005833 Walker B motif; other site 406425005834 arginine finger; other site 406425005835 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425005836 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425005837 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 406425005838 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 406425005839 DNA binding residues [nucleotide binding] 406425005840 putative dimer interface [polypeptide binding]; other site 406425005841 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 406425005842 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 406425005843 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 406425005844 Clp amino terminal domain; Region: Clp_N; pfam02861 406425005845 Clp amino terminal domain; Region: Clp_N; pfam02861 406425005846 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005847 Walker A motif; other site 406425005848 ATP binding site [chemical binding]; other site 406425005849 Walker B motif; other site 406425005850 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 406425005851 arginine finger; other site 406425005852 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005853 Walker A motif; other site 406425005854 ATP binding site [chemical binding]; other site 406425005855 Walker B motif; other site 406425005856 arginine finger; other site 406425005857 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 406425005858 Transcriptional regulator; Region: Rrf2; cl17282 406425005859 Rrf2 family protein; Region: rrf2_super; TIGR00738 406425005860 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 406425005861 apolar tunnel; other site 406425005862 heme binding site [chemical binding]; other site 406425005863 dimerization interface [polypeptide binding]; other site 406425005864 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 406425005865 MoaE homodimer interface [polypeptide binding]; other site 406425005866 MoaD interaction [polypeptide binding]; other site 406425005867 active site residues [active] 406425005868 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 406425005869 MoaE interaction surface [polypeptide binding]; other site 406425005870 MoeB interaction surface [polypeptide binding]; other site 406425005871 thiocarboxylated glycine; other site 406425005872 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 406425005873 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 406425005874 dimer interface [polypeptide binding]; other site 406425005875 putative functional site; other site 406425005876 putative MPT binding site; other site 406425005877 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 406425005878 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 406425005879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425005880 catalytic residue [active] 406425005881 homoserine dehydrogenase; Provisional; Region: PRK06349 406425005882 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 406425005883 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 406425005884 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 406425005885 aminotransferase AlaT; Validated; Region: PRK09265 406425005886 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425005887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425005888 homodimer interface [polypeptide binding]; other site 406425005889 catalytic residue [active] 406425005890 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 406425005891 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 406425005892 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 406425005893 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 406425005894 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 406425005895 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 406425005896 inhibitor-cofactor binding pocket; inhibition site 406425005897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425005898 catalytic residue [active] 406425005899 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 406425005900 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 406425005901 Ligand binding site; other site 406425005902 Putative Catalytic site; other site 406425005903 DXD motif; other site 406425005904 putative formyltransferase; Provisional; Region: PRK06988 406425005905 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 406425005906 active site 406425005907 substrate binding site [chemical binding]; other site 406425005908 cosubstrate binding site; other site 406425005909 catalytic site [active] 406425005910 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 406425005911 active site 406425005912 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 406425005913 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 406425005914 NAD binding site [chemical binding]; other site 406425005915 substrate binding site [chemical binding]; other site 406425005916 active site 406425005917 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 406425005918 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 406425005919 putative active site [active] 406425005920 putative catalytic site [active] 406425005921 putative Zn binding site [ion binding]; other site 406425005922 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 406425005923 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425005924 catalytic triad [active] 406425005925 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 406425005926 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 406425005927 putative active site [active] 406425005928 PhoH-like protein; Region: PhoH; pfam02562 406425005929 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 406425005930 NlpC/P60 family; Region: NLPC_P60; pfam00877 406425005931 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 406425005932 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 406425005933 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 406425005934 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 406425005935 Walker A motif; other site 406425005936 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl17442 406425005937 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 406425005938 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 406425005939 ATP binding site [chemical binding]; other site 406425005940 Walker B motif; other site 406425005941 DNA binding loops [nucleotide binding] 406425005942 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 406425005943 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 406425005944 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 406425005945 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 406425005946 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 406425005947 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 406425005948 Putative zinc-finger; Region: zf-HC2; pfam13490 406425005949 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 406425005950 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 406425005951 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425005952 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425005953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425005954 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425005955 putative effector binding pocket; other site 406425005956 dimerization interface [polypeptide binding]; other site 406425005957 glyoxylate carboligase; Provisional; Region: PRK11269 406425005958 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425005959 PYR/PP interface [polypeptide binding]; other site 406425005960 dimer interface [polypeptide binding]; other site 406425005961 TPP binding site [chemical binding]; other site 406425005962 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425005963 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 406425005964 TPP-binding site [chemical binding]; other site 406425005965 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 406425005966 tartronate semialdehyde reductase; Provisional; Region: PRK15059 406425005967 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 406425005968 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 406425005969 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425005970 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 406425005971 active site 406425005972 homodimer interface [polypeptide binding]; other site 406425005973 homotetramer interface [polypeptide binding]; other site 406425005974 psiF repeat; Region: PsiF_repeat; pfam07769 406425005975 psiF repeat; Region: PsiF_repeat; pfam07769 406425005976 Domain of unknown function DUF221; Region: DUF221; pfam02714 406425005977 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 406425005978 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 406425005979 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425005980 putative ADP-binding pocket [chemical binding]; other site 406425005981 Predicted ATPase [General function prediction only]; Region: COG4637 406425005982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425005983 Walker A/P-loop; other site 406425005984 ATP binding site [chemical binding]; other site 406425005985 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 406425005986 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425005987 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 406425005988 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 406425005989 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 406425005990 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 406425005991 active site 406425005992 DNA polymerase III subunit delta'; Validated; Region: PRK06964 406425005993 DNA polymerase III subunit delta'; Validated; Region: PRK08485 406425005994 thymidylate kinase; Validated; Region: tmk; PRK00698 406425005995 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 406425005996 TMP-binding site; other site 406425005997 ATP-binding site [chemical binding]; other site 406425005998 YceG-like family; Region: YceG; pfam02618 406425005999 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 406425006000 dimerization interface [polypeptide binding]; other site 406425006001 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 406425006002 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 406425006003 NRDE protein; Region: NRDE; cl01315 406425006004 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425006005 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425006006 Coenzyme A binding pocket [chemical binding]; other site 406425006007 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 406425006008 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425006009 substrate binding pocket [chemical binding]; other site 406425006010 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425006011 CoenzymeA binding site [chemical binding]; other site 406425006012 subunit interaction site [polypeptide binding]; other site 406425006013 PHB binding site; other site 406425006014 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 406425006015 Cache domain; Region: Cache_1; pfam02743 406425006016 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425006017 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425006018 metal binding site [ion binding]; metal-binding site 406425006019 active site 406425006020 I-site; other site 406425006021 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425006022 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425006023 metal binding site [ion binding]; metal-binding site 406425006024 active site 406425006025 I-site; other site 406425006026 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 406425006027 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425006028 dimer interface [polypeptide binding]; other site 406425006029 active site 406425006030 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 406425006031 Isochorismatase family; Region: Isochorismatase; pfam00857 406425006032 catalytic triad [active] 406425006033 metal binding site [ion binding]; metal-binding site 406425006034 conserved cis-peptide bond; other site 406425006035 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425006036 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 406425006037 substrate binding site [chemical binding]; other site 406425006038 oxyanion hole (OAH) forming residues; other site 406425006039 trimer interface [polypeptide binding]; other site 406425006040 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 406425006041 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425006042 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425006043 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 406425006044 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 406425006045 dimer interface [polypeptide binding]; other site 406425006046 acyl-activating enzyme (AAE) consensus motif; other site 406425006047 putative active site [active] 406425006048 AMP binding site [chemical binding]; other site 406425006049 putative CoA binding site [chemical binding]; other site 406425006050 Uncharacterized conserved protein [Function unknown]; Region: COG0397 406425006051 hypothetical protein; Validated; Region: PRK00029 406425006052 methionine sulfoxide reductase B; Provisional; Region: PRK00222 406425006053 SelR domain; Region: SelR; pfam01641 406425006054 intracellular septation protein A; Reviewed; Region: PRK00259 406425006055 BolA-like protein; Region: BolA; pfam01722 406425006056 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 406425006057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425006058 Coenzyme A binding pocket [chemical binding]; other site 406425006059 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 406425006060 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 406425006061 dimerization interface [polypeptide binding]; other site 406425006062 ATP binding site [chemical binding]; other site 406425006063 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 406425006064 dimerization interface [polypeptide binding]; other site 406425006065 ATP binding site [chemical binding]; other site 406425006066 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 406425006067 putative active site [active] 406425006068 catalytic triad [active] 406425006069 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 406425006070 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 406425006071 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 406425006072 putative substrate binding site [chemical binding]; other site 406425006073 putative ATP binding site [chemical binding]; other site 406425006074 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 406425006075 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 406425006076 active site 406425006077 dimer interface [polypeptide binding]; other site 406425006078 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 406425006079 dimer interface [polypeptide binding]; other site 406425006080 active site 406425006081 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 406425006082 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 406425006083 Walker A/P-loop; other site 406425006084 ATP binding site [chemical binding]; other site 406425006085 Q-loop/lid; other site 406425006086 ABC transporter signature motif; other site 406425006087 Walker B; other site 406425006088 D-loop; other site 406425006089 H-loop/switch region; other site 406425006090 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 406425006091 active site 406425006092 catalytic triad [active] 406425006093 oxyanion hole [active] 406425006094 switch loop; other site 406425006095 SurA N-terminal domain; Region: SurA_N_3; cl07813 406425006096 periplasmic folding chaperone; Provisional; Region: PRK10788 406425006097 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 406425006098 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 406425006099 Found in ATP-dependent protease La (LON); Region: LON; smart00464 406425006100 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425006101 Walker A motif; other site 406425006102 ATP binding site [chemical binding]; other site 406425006103 Walker B motif; other site 406425006104 arginine finger; other site 406425006105 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 406425006106 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 406425006107 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 406425006108 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425006109 Walker A motif; other site 406425006110 ATP binding site [chemical binding]; other site 406425006111 Walker B motif; other site 406425006112 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 406425006113 Clp protease; Region: CLP_protease; pfam00574 406425006114 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 406425006115 oligomer interface [polypeptide binding]; other site 406425006116 active site residues [active] 406425006117 trigger factor; Provisional; Region: tig; PRK01490 406425006118 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 406425006119 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 406425006120 Glycerate kinase family; Region: Gly_kinase; cl00841 406425006121 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425006122 MarR family; Region: MarR_2; pfam12802 406425006123 MarR family; Region: MarR_2; cl17246 406425006124 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 406425006125 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 406425006126 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425006127 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425006128 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425006129 dimerization interface [polypeptide binding]; other site 406425006130 DNA binding residues [nucleotide binding] 406425006131 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425006132 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425006133 eyelet of channel; other site 406425006134 trimer interface [polypeptide binding]; other site 406425006135 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 406425006136 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 406425006137 active site 406425006138 Zn binding site [ion binding]; other site 406425006139 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425006140 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425006141 putative active site [active] 406425006142 putative NTP binding site [chemical binding]; other site 406425006143 putative nucleic acid binding site [nucleotide binding]; other site 406425006144 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425006145 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 406425006146 active site lid residues [active] 406425006147 substrate binding pocket [chemical binding]; other site 406425006148 catalytic residues [active] 406425006149 substrate-Mg2+ binding site; other site 406425006150 aspartate-rich region 1; other site 406425006151 aspartate-rich region 2; other site 406425006152 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 406425006153 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 406425006154 osmolarity response regulator; Provisional; Region: ompR; PRK09468 406425006155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425006156 active site 406425006157 phosphorylation site [posttranslational modification] 406425006158 intermolecular recognition site; other site 406425006159 dimerization interface [polypeptide binding]; other site 406425006160 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425006161 DNA binding site [nucleotide binding] 406425006162 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 406425006163 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425006164 dimer interface [polypeptide binding]; other site 406425006165 phosphorylation site [posttranslational modification] 406425006166 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425006167 ATP binding site [chemical binding]; other site 406425006168 Mg2+ binding site [ion binding]; other site 406425006169 G-X-G motif; other site 406425006170 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 406425006171 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 406425006172 dimer interface [polypeptide binding]; other site 406425006173 decamer (pentamer of dimers) interface [polypeptide binding]; other site 406425006174 catalytic triad [active] 406425006175 peroxidatic and resolving cysteines [active] 406425006176 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 406425006177 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 406425006178 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 406425006179 homotrimer interaction site [polypeptide binding]; other site 406425006180 zinc binding site [ion binding]; other site 406425006181 CDP-binding sites; other site 406425006182 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 406425006183 substrate binding site; other site 406425006184 dimer interface; other site 406425006185 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 406425006186 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 406425006187 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425006188 ATP binding site [chemical binding]; other site 406425006189 putative Mg++ binding site [ion binding]; other site 406425006190 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425006191 nucleotide binding region [chemical binding]; other site 406425006192 ATP-binding site [chemical binding]; other site 406425006193 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 406425006194 acetylornithine deacetylase; Provisional; Region: PRK07522 406425006195 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 406425006196 metal binding site [ion binding]; metal-binding site 406425006197 putative dimer interface [polypeptide binding]; other site 406425006198 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 406425006199 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 406425006200 tetramer interface [polypeptide binding]; other site 406425006201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425006202 catalytic residue [active] 406425006203 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 406425006204 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 406425006205 Transglycosylase; Region: Transgly; pfam00912 406425006206 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 406425006207 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 406425006208 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425006209 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 406425006210 TPR motif; other site 406425006211 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 406425006212 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 406425006213 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 406425006214 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 406425006215 Dodecin; Region: Dodecin; pfam07311 406425006216 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425006217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425006218 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 406425006219 putative substrate binding pocket [chemical binding]; other site 406425006220 putative dimerization interface [polypeptide binding]; other site 406425006221 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 406425006222 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 406425006223 active site 406425006224 putative substrate binding pocket [chemical binding]; other site 406425006225 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 406425006226 active site 406425006227 homotetramer interface [polypeptide binding]; other site 406425006228 Predicted membrane protein [Function unknown]; Region: COG3748 406425006229 Protein of unknown function (DUF989); Region: DUF989; pfam06181 406425006230 Cytochrome c; Region: Cytochrom_C; pfam00034 406425006231 ACT domain; Region: ACT_3; pfam10000 406425006232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 406425006233 ureidoglycolate hydrolase; Provisional; Region: PRK03606 406425006234 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 406425006235 allantoicase; Provisional; Region: PRK13257 406425006236 Allantoicase repeat; Region: Allantoicase; pfam03561 406425006237 Allantoicase repeat; Region: Allantoicase; pfam03561 406425006238 OHCU decarboxylase; Region: UHCUDC; TIGR03164 406425006239 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 406425006240 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 406425006241 active site 406425006242 catalytic site [active] 406425006243 tetramer interface [polypeptide binding]; other site 406425006244 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 406425006245 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 406425006246 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 406425006247 Na binding site [ion binding]; other site 406425006248 putative substrate binding site [chemical binding]; other site 406425006249 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425006250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425006251 DNA-binding site [nucleotide binding]; DNA binding site 406425006252 FCD domain; Region: FCD; pfam07729 406425006253 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 406425006254 dimer interface [polypeptide binding]; other site 406425006255 catalytic triad [active] 406425006256 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 406425006257 nucleoside/Zn binding site; other site 406425006258 dimer interface [polypeptide binding]; other site 406425006259 catalytic motif [active] 406425006260 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 406425006261 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425006262 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425006263 putative substrate translocation pore; other site 406425006264 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 406425006265 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425006266 DNA-binding site [nucleotide binding]; DNA binding site 406425006267 UTRA domain; Region: UTRA; pfam07702 406425006268 putative oxidoreductase; Provisional; Region: PRK08275 406425006269 L-aspartate oxidase; Provisional; Region: PRK06175 406425006270 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 406425006271 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 406425006272 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 406425006273 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425006274 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 406425006275 substrate binding pocket [chemical binding]; other site 406425006276 membrane-bound complex binding site; other site 406425006277 NosL; Region: NosL; cl01769 406425006278 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425006279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425006280 dimer interface [polypeptide binding]; other site 406425006281 conserved gate region; other site 406425006282 putative PBP binding loops; other site 406425006283 ABC-ATPase subunit interface; other site 406425006284 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425006285 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425006286 Walker A/P-loop; other site 406425006287 ATP binding site [chemical binding]; other site 406425006288 Q-loop/lid; other site 406425006289 ABC transporter signature motif; other site 406425006290 Walker B; other site 406425006291 D-loop; other site 406425006292 H-loop/switch region; other site 406425006293 HEAT repeats; Region: HEAT_2; pfam13646 406425006294 HEAT repeats; Region: HEAT_2; pfam13646 406425006295 HEAT repeats; Region: HEAT_2; pfam13646 406425006296 Protein of unknown function (DUF971); Region: DUF971; pfam06155 406425006297 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 406425006298 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 406425006299 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 406425006300 nudix motif; other site 406425006301 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425006302 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425006303 Coenzyme A binding pocket [chemical binding]; other site 406425006304 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 406425006305 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 406425006306 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 406425006307 active site 406425006308 catalytic site [active] 406425006309 substrate binding site [chemical binding]; other site 406425006310 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425006311 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425006312 putative active site [active] 406425006313 putative NTP binding site [chemical binding]; other site 406425006314 putative nucleic acid binding site [nucleotide binding]; other site 406425006315 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425006316 GMP synthase; Reviewed; Region: guaA; PRK00074 406425006317 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 406425006318 AMP/PPi binding site [chemical binding]; other site 406425006319 candidate oxyanion hole; other site 406425006320 catalytic triad [active] 406425006321 potential glutamine specificity residues [chemical binding]; other site 406425006322 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 406425006323 ATP Binding subdomain [chemical binding]; other site 406425006324 Ligand Binding sites [chemical binding]; other site 406425006325 Dimerization subdomain; other site 406425006326 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 406425006327 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 406425006328 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 406425006329 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 406425006330 active site 406425006331 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 406425006332 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 406425006333 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 406425006334 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 406425006335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 406425006336 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 406425006337 putative coenzyme Q binding site [chemical binding]; other site 406425006338 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 406425006339 SmpB-tmRNA interface; other site 406425006340 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 406425006341 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 406425006342 phosphoenolpyruvate synthase; Validated; Region: PRK06464 406425006343 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 406425006344 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 406425006345 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 406425006346 PEP synthetase regulatory protein; Provisional; Region: PRK05339 406425006347 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 406425006348 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 406425006349 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 406425006350 RNA/DNA hybrid binding site [nucleotide binding]; other site 406425006351 active site 406425006352 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 406425006353 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 406425006354 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 406425006355 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 406425006356 active site 406425006357 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 406425006358 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 406425006359 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 406425006360 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 406425006361 trimer interface [polypeptide binding]; other site 406425006362 active site 406425006363 UDP-GlcNAc binding site [chemical binding]; other site 406425006364 lipid binding site [chemical binding]; lipid-binding site 406425006365 periplasmic chaperone; Provisional; Region: PRK10780 406425006366 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 406425006367 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 406425006368 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 406425006369 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 406425006370 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 406425006371 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 406425006372 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 406425006373 Surface antigen; Region: Bac_surface_Ag; pfam01103 406425006374 zinc metallopeptidase RseP; Provisional; Region: PRK10779 406425006375 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 406425006376 active site 406425006377 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 406425006378 protein binding site [polypeptide binding]; other site 406425006379 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 406425006380 putative substrate binding region [chemical binding]; other site 406425006381 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 406425006382 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 406425006383 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 406425006384 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 406425006385 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 406425006386 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 406425006387 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 406425006388 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 406425006389 catalytic residue [active] 406425006390 putative FPP diphosphate binding site; other site 406425006391 putative FPP binding hydrophobic cleft; other site 406425006392 dimer interface [polypeptide binding]; other site 406425006393 putative IPP diphosphate binding site; other site 406425006394 ribosome recycling factor; Reviewed; Region: frr; PRK00083 406425006395 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 406425006396 hinge region; other site 406425006397 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 406425006398 putative nucleotide binding site [chemical binding]; other site 406425006399 uridine monophosphate binding site [chemical binding]; other site 406425006400 homohexameric interface [polypeptide binding]; other site 406425006401 elongation factor Ts; Provisional; Region: tsf; PRK09377 406425006402 UBA/TS-N domain; Region: UBA; pfam00627 406425006403 Elongation factor TS; Region: EF_TS; pfam00889 406425006404 Elongation factor TS; Region: EF_TS; pfam00889 406425006405 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 406425006406 rRNA interaction site [nucleotide binding]; other site 406425006407 S8 interaction site; other site 406425006408 putative laminin-1 binding site; other site 406425006409 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 406425006410 active site 406425006411 PII uridylyl-transferase; Provisional; Region: PRK03059 406425006412 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 406425006413 metal binding triad; other site 406425006414 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 406425006415 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425006416 Zn2+ binding site [ion binding]; other site 406425006417 Mg2+ binding site [ion binding]; other site 406425006418 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 406425006419 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 406425006420 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 406425006421 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425006422 RNA binding surface [nucleotide binding]; other site 406425006423 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 406425006424 active site 406425006425 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 406425006426 active site 406425006427 catalytic residues [active] 406425006428 metal binding site [ion binding]; metal-binding site 406425006429 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 406425006430 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 406425006431 nucleotide binding pocket [chemical binding]; other site 406425006432 K-X-D-G motif; other site 406425006433 catalytic site [active] 406425006434 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 406425006435 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 406425006436 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 406425006437 Dimer interface [polypeptide binding]; other site 406425006438 BRCT sequence motif; other site 406425006439 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 406425006440 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 406425006441 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 406425006442 Walker A/P-loop; other site 406425006443 ATP binding site [chemical binding]; other site 406425006444 Q-loop/lid; other site 406425006445 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 406425006446 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 406425006447 Q-loop/lid; other site 406425006448 ABC transporter signature motif; other site 406425006449 Walker B; other site 406425006450 D-loop; other site 406425006451 H-loop/switch region; other site 406425006452 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 406425006453 EamA-like transporter family; Region: EamA; pfam00892 406425006454 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 406425006455 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425006456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425006457 homodimer interface [polypeptide binding]; other site 406425006458 catalytic residue [active] 406425006459 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 406425006460 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 406425006461 trimer interface [polypeptide binding]; other site 406425006462 active site 406425006463 substrate binding site [chemical binding]; other site 406425006464 CoA binding site [chemical binding]; other site 406425006465 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 406425006466 ArsC family; Region: ArsC; pfam03960 406425006467 putative catalytic residues [active] 406425006468 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 406425006469 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 406425006470 metal binding site [ion binding]; metal-binding site 406425006471 dimer interface [polypeptide binding]; other site 406425006472 HemK family putative methylases; Region: hemK_fam; TIGR00536 406425006473 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425006474 S-adenosylmethionine binding site [chemical binding]; other site 406425006475 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 406425006476 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 406425006477 putative active site [active] 406425006478 catalytic site [active] 406425006479 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 406425006480 putative active site [active] 406425006481 catalytic site [active] 406425006482 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 406425006483 catalytic residues [active] 406425006484 dimer interface [polypeptide binding]; other site 406425006485 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 406425006486 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 406425006487 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 406425006488 ABC transporter; Region: ABC_tran_2; pfam12848 406425006489 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 406425006490 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 406425006491 DNA repair protein RadA; Provisional; Region: PRK11823 406425006492 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 406425006493 Walker A motif/ATP binding site; other site 406425006494 ATP binding site [chemical binding]; other site 406425006495 Walker B motif; other site 406425006496 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 406425006497 alanine racemase; Reviewed; Region: dadX; PRK03646 406425006498 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 406425006499 active site 406425006500 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425006501 substrate binding site [chemical binding]; other site 406425006502 catalytic residues [active] 406425006503 dimer interface [polypeptide binding]; other site 406425006504 lysophospholipid transporter LplT; Provisional; Region: PRK11195 406425006505 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425006506 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 406425006507 dimer interface [polypeptide binding]; other site 406425006508 substrate binding site [chemical binding]; other site 406425006509 ATP binding site [chemical binding]; other site 406425006510 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 406425006511 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 406425006512 Fe-S cluster binding site [ion binding]; other site 406425006513 active site 406425006514 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 406425006515 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425006516 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 406425006517 Glycoprotease family; Region: Peptidase_M22; pfam00814 406425006518 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 406425006519 acyl-CoA binding pocket [chemical binding]; other site 406425006520 CoA binding site [chemical binding]; other site 406425006521 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425006522 DEAD-like helicases superfamily; Region: DEXDc; smart00487 406425006523 ATP binding site [chemical binding]; other site 406425006524 Mg++ binding site [ion binding]; other site 406425006525 motif III; other site 406425006526 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425006527 nucleotide binding region [chemical binding]; other site 406425006528 ATP-binding site [chemical binding]; other site 406425006529 isocitrate lyase; Provisional; Region: PRK15063 406425006530 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425006531 tetramer interface [polypeptide binding]; other site 406425006532 active site 406425006533 Mg2+/Mn2+ binding site [ion binding]; other site 406425006534 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425006535 Ligand Binding Site [chemical binding]; other site 406425006536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425006537 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425006538 putative effector binding pocket; other site 406425006539 dimerization interface [polypeptide binding]; other site 406425006540 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 406425006541 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425006542 motif II; other site 406425006543 malate synthase A; Region: malate_syn_A; TIGR01344 406425006544 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 406425006545 active site 406425006546 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 406425006547 putative active site pocket [active] 406425006548 dimerization interface [polypeptide binding]; other site 406425006549 putative catalytic residue [active] 406425006550 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425006551 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425006552 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425006553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425006554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425006555 Coenzyme A binding pocket [chemical binding]; other site 406425006556 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 406425006557 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 406425006558 active site 406425006559 HIGH motif; other site 406425006560 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 406425006561 active site 406425006562 KMSKS motif; other site 406425006563 hypothetical protein; Provisional; Region: PRK10279 406425006564 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 406425006565 nucleophile elbow; other site 406425006566 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 406425006567 NlpC/P60 family; Region: NLPC_P60; pfam00877 406425006568 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 406425006569 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425006570 Walker A/P-loop; other site 406425006571 ATP binding site [chemical binding]; other site 406425006572 Q-loop/lid; other site 406425006573 ABC transporter signature motif; other site 406425006574 Walker B; other site 406425006575 D-loop; other site 406425006576 H-loop/switch region; other site 406425006577 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425006578 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425006579 Walker A/P-loop; other site 406425006580 ATP binding site [chemical binding]; other site 406425006581 Q-loop/lid; other site 406425006582 ABC transporter signature motif; other site 406425006583 Walker B; other site 406425006584 D-loop; other site 406425006585 H-loop/switch region; other site 406425006586 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425006587 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 406425006588 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 406425006589 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425006590 dimer interface [polypeptide binding]; other site 406425006591 conserved gate region; other site 406425006592 putative PBP binding loops; other site 406425006593 ABC-ATPase subunit interface; other site 406425006594 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 406425006595 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425006596 dimer interface [polypeptide binding]; other site 406425006597 conserved gate region; other site 406425006598 putative PBP binding loops; other site 406425006599 ABC-ATPase subunit interface; other site 406425006600 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 406425006601 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 406425006602 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 406425006603 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425006604 DNA binding site [nucleotide binding] 406425006605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425006606 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425006607 dimerization interface [polypeptide binding]; other site 406425006608 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425006609 dimer interface [polypeptide binding]; other site 406425006610 phosphorylation site [posttranslational modification] 406425006611 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425006612 ATP binding site [chemical binding]; other site 406425006613 Mg2+ binding site [ion binding]; other site 406425006614 G-X-G motif; other site 406425006615 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425006616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425006617 active site 406425006618 phosphorylation site [posttranslational modification] 406425006619 intermolecular recognition site; other site 406425006620 dimerization interface [polypeptide binding]; other site 406425006621 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425006622 DNA binding site [nucleotide binding] 406425006623 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425006624 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 406425006625 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 406425006626 Subunit I/III interface [polypeptide binding]; other site 406425006627 Subunit III/IV interface [polypeptide binding]; other site 406425006628 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 406425006629 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 406425006630 D-pathway; other site 406425006631 Putative ubiquinol binding site [chemical binding]; other site 406425006632 Low-spin heme (heme b) binding site [chemical binding]; other site 406425006633 Putative water exit pathway; other site 406425006634 Binuclear center (heme o3/CuB) [ion binding]; other site 406425006635 K-pathway; other site 406425006636 Putative proton exit pathway; other site 406425006637 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 406425006638 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 406425006639 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 406425006640 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 406425006641 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 406425006642 galactosyl transferase GMA12/MNN10 family; Region: Glyco_transf_34; cl05288 406425006643 aspartate kinase; Reviewed; Region: PRK06635 406425006644 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 406425006645 putative nucleotide binding site [chemical binding]; other site 406425006646 putative catalytic residues [active] 406425006647 putative Mg ion binding site [ion binding]; other site 406425006648 putative aspartate binding site [chemical binding]; other site 406425006649 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 406425006650 putative allosteric regulatory site; other site 406425006651 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 406425006652 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 406425006653 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 406425006654 Ligand Binding Site [chemical binding]; other site 406425006655 TilS substrate binding domain; Region: TilS; pfam09179 406425006656 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 406425006657 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 406425006658 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 406425006659 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 406425006660 endonuclease III; Region: ENDO3c; smart00478 406425006661 minor groove reading motif; other site 406425006662 helix-hairpin-helix signature motif; other site 406425006663 substrate binding pocket [chemical binding]; other site 406425006664 active site 406425006665 Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: CysS; COG0215 406425006666 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 406425006667 active site 406425006668 HIGH motif; other site 406425006669 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 406425006670 KMSKS motif; other site 406425006671 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 406425006672 tRNA binding surface [nucleotide binding]; other site 406425006673 anticodon binding site; other site 406425006674 TPR repeat; Region: TPR_11; pfam13414 406425006675 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425006676 binding surface 406425006677 TPR motif; other site 406425006678 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 406425006679 substrate binding site [chemical binding]; other site 406425006680 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 406425006681 substrate binding site [chemical binding]; other site 406425006682 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425006683 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 406425006684 putative active site [active] 406425006685 putative metal binding site [ion binding]; other site 406425006686 serine O-acetyltransferase; Region: cysE; TIGR01172 406425006687 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 406425006688 trimer interface [polypeptide binding]; other site 406425006689 active site 406425006690 substrate binding site [chemical binding]; other site 406425006691 CoA binding site [chemical binding]; other site 406425006692 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 406425006693 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 406425006694 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 406425006695 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 406425006696 active site 406425006697 dimerization interface [polypeptide binding]; other site 406425006698 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 406425006699 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425006700 EthD domain; Region: EthD; cl17553 406425006701 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 406425006702 MutS domain I; Region: MutS_I; pfam01624 406425006703 MutS domain II; Region: MutS_II; pfam05188 406425006704 MutS domain III; Region: MutS_III; pfam05192 406425006705 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 406425006706 Walker A/P-loop; other site 406425006707 ATP binding site [chemical binding]; other site 406425006708 Q-loop/lid; other site 406425006709 ABC transporter signature motif; other site 406425006710 Walker B; other site 406425006711 D-loop; other site 406425006712 H-loop/switch region; other site 406425006713 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 406425006714 Uncharacterized conserved protein [Function unknown]; Region: COG2850 406425006715 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 406425006716 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 406425006717 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 406425006718 dihydrodipicolinate synthase; Region: dapA; TIGR00674 406425006719 dimer interface [polypeptide binding]; other site 406425006720 active site 406425006721 catalytic residue [active] 406425006722 Methyltransferase domain; Region: Methyltransf_18; pfam12847 406425006723 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 406425006724 active site 406425006725 HIGH motif; other site 406425006726 dimer interface [polypeptide binding]; other site 406425006727 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425006728 active site 406425006729 KMSKS motif; other site 406425006730 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 406425006731 Peptidase family M50; Region: Peptidase_M50; pfam02163 406425006732 active site 406425006733 putative substrate binding region [chemical binding]; other site 406425006734 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 406425006735 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 406425006736 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 406425006737 active site 406425006738 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 406425006739 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425006740 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425006741 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 406425006742 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 406425006743 dinuclear metal binding motif [ion binding]; other site 406425006744 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 406425006745 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 406425006746 trimer interface [polypeptide binding]; other site 406425006747 putative metal binding site [ion binding]; other site 406425006748 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 406425006749 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 406425006750 dimerization interface [polypeptide binding]; other site 406425006751 domain crossover interface; other site 406425006752 redox-dependent activation switch; other site 406425006753 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 406425006754 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 406425006755 enolase; Provisional; Region: eno; PRK00077 406425006756 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 406425006757 dimer interface [polypeptide binding]; other site 406425006758 metal binding site [ion binding]; metal-binding site 406425006759 substrate binding pocket [chemical binding]; other site 406425006760 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 406425006761 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 406425006762 CTP synthetase; Validated; Region: pyrG; PRK05380 406425006763 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 406425006764 Catalytic site [active] 406425006765 active site 406425006766 UTP binding site [chemical binding]; other site 406425006767 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 406425006768 active site 406425006769 putative oxyanion hole; other site 406425006770 catalytic triad [active] 406425006771 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 406425006772 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 406425006773 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 406425006774 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 406425006775 Competence protein; Region: Competence; pfam03772 406425006776 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 406425006777 active site 406425006778 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 406425006779 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 406425006780 Walker A/P-loop; other site 406425006781 ATP binding site [chemical binding]; other site 406425006782 Q-loop/lid; other site 406425006783 ABC transporter signature motif; other site 406425006784 Walker B; other site 406425006785 D-loop; other site 406425006786 H-loop/switch region; other site 406425006787 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 406425006788 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425006789 FtsX-like permease family; Region: FtsX; pfam02687 406425006790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 406425006791 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 406425006792 DHH family; Region: DHH; pfam01368 406425006793 DHHA1 domain; Region: DHHA1; pfam02272 406425006794 peptide chain release factor 2; Validated; Region: prfB; PRK00578 406425006795 This domain is found in peptide chain release factors; Region: PCRF; smart00937 406425006796 RF-1 domain; Region: RF-1; pfam00472 406425006797 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 406425006798 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 406425006799 dimer interface [polypeptide binding]; other site 406425006800 putative anticodon binding site; other site 406425006801 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 406425006802 motif 1; other site 406425006803 active site 406425006804 motif 2; other site 406425006805 motif 3; other site 406425006806 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 406425006807 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425006808 catalytic loop [active] 406425006809 iron binding site [ion binding]; other site 406425006810 chaperone protein HscA; Provisional; Region: hscA; PRK05183 406425006811 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 406425006812 nucleotide binding site [chemical binding]; other site 406425006813 putative NEF/HSP70 interaction site [polypeptide binding]; other site 406425006814 SBD interface [polypeptide binding]; other site 406425006815 co-chaperone HscB; Provisional; Region: hscB; PRK03578 406425006816 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 406425006817 HSP70 interaction site [polypeptide binding]; other site 406425006818 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 406425006819 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 406425006820 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 406425006821 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 406425006822 trimerization site [polypeptide binding]; other site 406425006823 active site 406425006824 cysteine desulfurase; Provisional; Region: PRK14012 406425006825 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 406425006826 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425006827 catalytic residue [active] 406425006828 Predicted transcriptional regulator [Transcription]; Region: COG1959 406425006829 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 406425006830 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 406425006831 Low molecular weight phosphatase family; Region: LMWPc; cd00115 406425006832 active site 406425006833 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 406425006834 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 406425006835 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 406425006836 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 406425006837 Cysteine-rich domain; Region: CCG; pfam02754 406425006838 Cysteine-rich domain; Region: CCG; pfam02754 406425006839 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425006840 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425006841 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425006842 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 406425006843 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 406425006844 Phasin protein; Region: Phasin_2; pfam09361 406425006845 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425006846 E3 interaction surface; other site 406425006847 lipoyl attachment site [posttranslational modification]; other site 406425006848 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 406425006849 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425006850 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425006851 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425006852 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 406425006853 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425006854 E3 interaction surface; other site 406425006855 lipoyl attachment site [posttranslational modification]; other site 406425006856 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425006857 E3 interaction surface; other site 406425006858 lipoyl attachment site [posttranslational modification]; other site 406425006859 e3 binding domain; Region: E3_binding; pfam02817 406425006860 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 406425006861 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 406425006862 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 406425006863 dimer interface [polypeptide binding]; other site 406425006864 TPP-binding site [chemical binding]; other site 406425006865 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 406425006866 PAS domain S-box; Region: sensory_box; TIGR00229 406425006867 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425006868 putative active site [active] 406425006869 heme pocket [chemical binding]; other site 406425006870 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425006871 dimer interface [polypeptide binding]; other site 406425006872 phosphorylation site [posttranslational modification] 406425006873 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425006874 ATP binding site [chemical binding]; other site 406425006875 Mg2+ binding site [ion binding]; other site 406425006876 G-X-G motif; other site 406425006877 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 406425006878 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425006879 active site 406425006880 phosphorylation site [posttranslational modification] 406425006881 intermolecular recognition site; other site 406425006882 dimerization interface [polypeptide binding]; other site 406425006883 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425006884 DNA binding residues [nucleotide binding] 406425006885 dimerization interface [polypeptide binding]; other site 406425006886 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 406425006887 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 406425006888 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 406425006889 homodimer interface [polypeptide binding]; other site 406425006890 NADP binding site [chemical binding]; other site 406425006891 substrate binding site [chemical binding]; other site 406425006892 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 406425006893 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 406425006894 active site 406425006895 Zn binding site [ion binding]; other site 406425006896 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 406425006897 active site 406425006898 DNA polymerase IV; Validated; Region: PRK02406 406425006899 DNA binding site [nucleotide binding] 406425006900 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 406425006901 aspartate racemase; Region: asp_race; TIGR00035 406425006902 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 406425006903 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 406425006904 putative catalytic site [active] 406425006905 putative phosphate binding site [ion binding]; other site 406425006906 active site 406425006907 metal binding site A [ion binding]; metal-binding site 406425006908 DNA binding site [nucleotide binding] 406425006909 putative AP binding site [nucleotide binding]; other site 406425006910 putative metal binding site B [ion binding]; other site 406425006911 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 406425006912 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425006913 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 406425006914 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425006915 active site 406425006916 phosphorylation site [posttranslational modification] 406425006917 intermolecular recognition site; other site 406425006918 dimerization interface [polypeptide binding]; other site 406425006919 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425006920 Walker A motif; other site 406425006921 ATP binding site [chemical binding]; other site 406425006922 Walker B motif; other site 406425006923 arginine finger; other site 406425006924 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425006925 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 406425006926 PAS domain; Region: PAS; smart00091 406425006927 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425006928 dimer interface [polypeptide binding]; other site 406425006929 phosphorylation site [posttranslational modification] 406425006930 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425006931 ATP binding site [chemical binding]; other site 406425006932 Mg2+ binding site [ion binding]; other site 406425006933 G-X-G motif; other site 406425006934 glutamine synthetase; Provisional; Region: glnA; PRK09469 406425006935 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 406425006936 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425006937 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 406425006938 active site residue [active] 406425006939 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 406425006940 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 406425006941 putative MPT binding site; other site 406425006942 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 406425006943 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 406425006944 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 406425006945 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 406425006946 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 406425006947 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 406425006948 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425006949 ATP binding site [chemical binding]; other site 406425006950 putative Mg++ binding site [ion binding]; other site 406425006951 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425006952 nucleotide binding region [chemical binding]; other site 406425006953 ATP-binding site [chemical binding]; other site 406425006954 Helicase associated domain (HA2); Region: HA2; pfam04408 406425006955 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 406425006956 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 406425006957 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 406425006958 N-acetylglutamate synthase; Validated; Region: PRK05279 406425006959 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 406425006960 putative feedback inhibition sensing region; other site 406425006961 putative nucleotide binding site [chemical binding]; other site 406425006962 putative substrate binding site [chemical binding]; other site 406425006963 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425006964 Coenzyme A binding pocket [chemical binding]; other site 406425006965 oxidative damage protection protein; Provisional; Region: PRK05408 406425006966 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425006967 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425006968 putative substrate translocation pore; other site 406425006969 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425006970 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425006971 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425006972 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425006973 active site 406425006974 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425006975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425006976 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425006977 dimerization interface [polypeptide binding]; other site 406425006978 putative aminotransferase; Validated; Region: PRK07480 406425006979 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425006980 inhibitor-cofactor binding pocket; inhibition site 406425006981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425006982 catalytic residue [active] 406425006983 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 406425006984 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425006985 Peptidase C26; Region: Peptidase_C26; pfam07722 406425006986 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 406425006987 catalytic triad [active] 406425006988 N-formylglutamate amidohydrolase; Region: FGase; cl01522 406425006989 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 406425006990 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 406425006991 active site 406425006992 imidazolonepropionase; Validated; Region: PRK09356 406425006993 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 406425006994 active site 406425006995 HutD; Region: HutD; pfam05962 406425006996 urocanate hydratase; Provisional; Region: PRK05414 406425006997 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 406425006998 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425006999 DNA-binding site [nucleotide binding]; DNA binding site 406425007000 UTRA domain; Region: UTRA; pfam07702 406425007001 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 406425007002 active sites [active] 406425007003 tetramer interface [polypeptide binding]; other site 406425007004 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425007005 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425007006 substrate binding pocket [chemical binding]; other site 406425007007 membrane-bound complex binding site; other site 406425007008 hinge residues; other site 406425007009 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 406425007010 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 406425007011 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 406425007012 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 406425007013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425007014 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425007015 dimerization interface [polypeptide binding]; other site 406425007016 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007017 putative substrate translocation pore; other site 406425007018 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425007019 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 406425007020 DNA photolyase; Region: DNA_photolyase; pfam00875 406425007021 D-galactonate transporter; Region: 2A0114; TIGR00893 406425007022 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007023 putative substrate translocation pore; other site 406425007024 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 406425007025 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 406425007026 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425007027 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425007028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425007029 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425007030 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 406425007031 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 406425007032 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 406425007033 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 406425007034 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 406425007035 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425007036 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425007037 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 406425007038 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 406425007039 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 406425007040 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425007041 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425007042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 406425007043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425007044 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 406425007045 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425007046 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425007047 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 406425007048 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 406425007049 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 406425007050 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 406425007051 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 406425007052 acetyl-CoA synthetase; Provisional; Region: PRK00174 406425007053 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 406425007054 active site 406425007055 CoA binding site [chemical binding]; other site 406425007056 acyl-activating enzyme (AAE) consensus motif; other site 406425007057 AMP binding site [chemical binding]; other site 406425007058 acetate binding site [chemical binding]; other site 406425007059 EamA-like transporter family; Region: EamA; pfam00892 406425007060 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425007061 EamA-like transporter family; Region: EamA; pfam00892 406425007062 hypothetical protein; Provisional; Region: PRK05208 406425007063 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 406425007064 Fumarase C-terminus; Region: Fumerase_C; pfam05683 406425007065 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 406425007066 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 406425007067 heme binding site [chemical binding]; other site 406425007068 ferroxidase pore; other site 406425007069 ferroxidase diiron center [ion binding]; other site 406425007070 glutamate racemase; Provisional; Region: PRK00865 406425007071 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 406425007072 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 406425007073 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 406425007074 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 406425007075 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 406425007076 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 406425007077 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425007078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425007079 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 406425007080 putative effector binding pocket; other site 406425007081 putative dimerization interface [polypeptide binding]; other site 406425007082 Pirin-related protein [General function prediction only]; Region: COG1741 406425007083 Pirin; Region: Pirin; pfam02678 406425007084 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 406425007085 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 406425007086 putative hydrophobic ligand binding site [chemical binding]; other site 406425007087 Hemin uptake protein hemP; Region: hemP; pfam10636 406425007088 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 406425007089 4Fe-4S binding domain; Region: Fer4_5; pfam12801 406425007090 Iron permease FTR1 family; Region: FTR1; cl00475 406425007091 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 406425007092 Fe2+ transport protein; Region: Iron_transport; pfam10634 406425007093 excinuclease ABC subunit B; Provisional; Region: PRK05298 406425007094 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425007095 ATP binding site [chemical binding]; other site 406425007096 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425007097 nucleotide binding region [chemical binding]; other site 406425007098 ATP-binding site [chemical binding]; other site 406425007099 Ultra-violet resistance protein B; Region: UvrB; pfam12344 406425007100 UvrB/uvrC motif; Region: UVR; pfam02151 406425007101 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 406425007102 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425007103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425007104 homodimer interface [polypeptide binding]; other site 406425007105 catalytic residue [active] 406425007106 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 406425007107 classical (c) SDRs; Region: SDR_c; cd05233 406425007108 NAD(P) binding site [chemical binding]; other site 406425007109 active site 406425007110 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 406425007111 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425007112 active site 406425007113 catalytic tetrad [active] 406425007114 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 406425007115 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 406425007116 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 406425007117 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 406425007118 DNA binding residues [nucleotide binding] 406425007119 dimer interface [polypeptide binding]; other site 406425007120 copper binding site [ion binding]; other site 406425007121 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 406425007122 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425007123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 406425007124 active site 406425007125 phosphorylation site [posttranslational modification] 406425007126 dimerization interface [polypeptide binding]; other site 406425007127 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425007128 DNA binding residues [nucleotide binding] 406425007129 Predicted membrane protein [Function unknown]; Region: COG3235 406425007130 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 406425007131 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 406425007132 putative active site [active] 406425007133 Zn binding site [ion binding]; other site 406425007134 hypothetical protein; Validated; Region: PRK02101 406425007135 PIN domain; Region: PIN_3; pfam13470 406425007136 methionine aminotransferase; Validated; Region: PRK09082 406425007137 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425007138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425007139 homodimer interface [polypeptide binding]; other site 406425007140 catalytic residue [active] 406425007141 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425007142 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 406425007143 C-terminal domain interface [polypeptide binding]; other site 406425007144 GSH binding site (G-site) [chemical binding]; other site 406425007145 dimer interface [polypeptide binding]; other site 406425007146 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 406425007147 putative N-terminal domain interface [polypeptide binding]; other site 406425007148 putative dimer interface [polypeptide binding]; other site 406425007149 putative substrate binding pocket (H-site) [chemical binding]; other site 406425007150 enoyl-CoA hydratase; Provisional; Region: PRK07511 406425007151 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425007152 substrate binding site [chemical binding]; other site 406425007153 oxyanion hole (OAH) forming residues; other site 406425007154 trimer interface [polypeptide binding]; other site 406425007155 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 406425007156 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 406425007157 C-terminal domain interface [polypeptide binding]; other site 406425007158 GSH binding site (G-site) [chemical binding]; other site 406425007159 dimer interface [polypeptide binding]; other site 406425007160 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 406425007161 N-terminal domain interface [polypeptide binding]; other site 406425007162 putative dimer interface [polypeptide binding]; other site 406425007163 active site 406425007164 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 406425007165 putative active site [active] 406425007166 putative catalytic site [active] 406425007167 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 406425007168 putative active site [active] 406425007169 putative catalytic site [active] 406425007170 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425007171 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425007172 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425007173 active site 406425007174 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425007175 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 406425007176 FAD binding site [chemical binding]; other site 406425007177 substrate binding site [chemical binding]; other site 406425007178 catalytic base [active] 406425007179 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 406425007180 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 406425007181 dimer interface [polypeptide binding]; other site 406425007182 ADP-ribose binding site [chemical binding]; other site 406425007183 active site 406425007184 nudix motif; other site 406425007185 metal binding site [ion binding]; metal-binding site 406425007186 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 406425007187 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 406425007188 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 406425007189 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 406425007190 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 406425007191 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 406425007192 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 406425007193 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 406425007194 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 406425007195 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 406425007196 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 406425007197 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 406425007198 4Fe-4S binding domain; Region: Fer4; cl02805 406425007199 4Fe-4S binding domain; Region: Fer4; pfam00037 406425007200 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 406425007201 NADH dehydrogenase subunit G; Validated; Region: PRK09129 406425007202 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425007203 catalytic loop [active] 406425007204 iron binding site [ion binding]; other site 406425007205 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 406425007206 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 406425007207 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 406425007208 SLBB domain; Region: SLBB; pfam10531 406425007209 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 406425007210 NADH dehydrogenase subunit E; Validated; Region: PRK07539 406425007211 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 406425007212 putative dimer interface [polypeptide binding]; other site 406425007213 [2Fe-2S] cluster binding site [ion binding]; other site 406425007214 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 406425007215 NADH dehydrogenase subunit D; Validated; Region: PRK06075 406425007216 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 406425007217 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 406425007218 NADH dehydrogenase subunit B; Validated; Region: PRK06411 406425007219 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 406425007220 Preprotein translocase SecG subunit; Region: SecG; pfam03840 406425007221 triosephosphate isomerase; Provisional; Region: PRK14567 406425007222 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 406425007223 substrate binding site [chemical binding]; other site 406425007224 dimer interface [polypeptide binding]; other site 406425007225 catalytic triad [active] 406425007226 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 406425007227 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 406425007228 NAD(P) binding site [chemical binding]; other site 406425007229 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 406425007230 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 406425007231 RNase E interface [polypeptide binding]; other site 406425007232 trimer interface [polypeptide binding]; other site 406425007233 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 406425007234 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 406425007235 RNase E interface [polypeptide binding]; other site 406425007236 trimer interface [polypeptide binding]; other site 406425007237 active site 406425007238 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 406425007239 putative nucleic acid binding region [nucleotide binding]; other site 406425007240 G-X-X-G motif; other site 406425007241 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 406425007242 RNA binding site [nucleotide binding]; other site 406425007243 domain interface; other site 406425007244 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 406425007245 16S/18S rRNA binding site [nucleotide binding]; other site 406425007246 S13e-L30e interaction site [polypeptide binding]; other site 406425007247 25S rRNA binding site [nucleotide binding]; other site 406425007248 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425007249 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 406425007250 putative ligand binding site [chemical binding]; other site 406425007251 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 406425007252 active site clefts [active] 406425007253 zinc binding site [ion binding]; other site 406425007254 dimer interface [polypeptide binding]; other site 406425007255 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 406425007256 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 406425007257 Sulfate transporter family; Region: Sulfate_transp; pfam00916 406425007258 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 406425007259 2-isopropylmalate synthase; Validated; Region: PRK00915 406425007260 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 406425007261 active site 406425007262 catalytic residues [active] 406425007263 metal binding site [ion binding]; metal-binding site 406425007264 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 406425007265 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 406425007266 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 406425007267 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 406425007268 ketol-acid reductoisomerase; Provisional; Region: PRK05479 406425007269 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 406425007270 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 406425007271 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 406425007272 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 406425007273 putative valine binding site [chemical binding]; other site 406425007274 dimer interface [polypeptide binding]; other site 406425007275 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 406425007276 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 406425007277 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425007278 PYR/PP interface [polypeptide binding]; other site 406425007279 dimer interface [polypeptide binding]; other site 406425007280 TPP binding site [chemical binding]; other site 406425007281 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425007282 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 406425007283 TPP-binding site [chemical binding]; other site 406425007284 dimer interface [polypeptide binding]; other site 406425007285 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425007286 RNA polymerase factor sigma-70; Validated; Region: PRK09047 406425007287 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425007288 DNA binding residues [nucleotide binding] 406425007289 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 406425007290 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 406425007291 RDD family; Region: RDD; pfam06271 406425007292 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 406425007293 putative active site [active] 406425007294 putative metal binding site [ion binding]; other site 406425007295 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425007296 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 406425007297 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 406425007298 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425007299 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425007300 Bacterial transcriptional repressor; Region: TetR; pfam13972 406425007301 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 406425007302 glucose-1-dehydrogenase; Provisional; Region: PRK06947 406425007303 classical (c) SDRs; Region: SDR_c; cd05233 406425007304 NAD(P) binding site [chemical binding]; other site 406425007305 active site 406425007306 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 406425007307 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 406425007308 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 406425007309 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 406425007310 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 406425007311 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 406425007312 apolar tunnel; other site 406425007313 heme binding site [chemical binding]; other site 406425007314 dimerization interface [polypeptide binding]; other site 406425007315 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 406425007316 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 406425007317 multidrug efflux system protein; Provisional; Region: PRK11431 406425007318 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 406425007319 Domain of unknown function (DUF333); Region: DUF333; pfam03891 406425007320 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 406425007321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425007322 active site 406425007323 phosphorylation site [posttranslational modification] 406425007324 intermolecular recognition site; other site 406425007325 dimerization interface [polypeptide binding]; other site 406425007326 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425007327 DNA binding site [nucleotide binding] 406425007328 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 406425007329 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 406425007330 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 406425007331 Ligand Binding Site [chemical binding]; other site 406425007332 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 406425007333 GAF domain; Region: GAF_3; pfam13492 406425007334 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425007335 dimer interface [polypeptide binding]; other site 406425007336 phosphorylation site [posttranslational modification] 406425007337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425007338 ATP binding site [chemical binding]; other site 406425007339 Mg2+ binding site [ion binding]; other site 406425007340 G-X-G motif; other site 406425007341 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 406425007342 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 406425007343 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 406425007344 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 406425007345 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 406425007346 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 406425007347 NADP binding site [chemical binding]; other site 406425007348 dimer interface [polypeptide binding]; other site 406425007349 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 406425007350 substrate binding site [chemical binding]; other site 406425007351 short chain dehydrogenase; Provisional; Region: PRK08339 406425007352 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 406425007353 putative NAD(P) binding site [chemical binding]; other site 406425007354 putative active site [active] 406425007355 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425007356 active site 406425007357 hypothetical protein; Validated; Region: PRK00110 406425007358 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 406425007359 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 406425007360 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 406425007361 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 406425007362 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 406425007363 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 406425007364 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 406425007365 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 406425007366 active site 406425007367 (T/H)XGH motif; other site 406425007368 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 406425007369 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 406425007370 Maf-like protein; Region: Maf; pfam02545 406425007371 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 406425007372 active site 406425007373 dimer interface [polypeptide binding]; other site 406425007374 ribonuclease G; Provisional; Region: PRK11712 406425007375 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 406425007376 homodimer interface [polypeptide binding]; other site 406425007377 oligonucleotide binding site [chemical binding]; other site 406425007378 Protein with unknown function (DUF469); Region: DUF469; pfam04320 406425007379 PRC-barrel domain; Region: PRC; pfam05239 406425007380 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007381 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425007382 putative substrate translocation pore; other site 406425007383 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 406425007384 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 406425007385 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 406425007386 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 406425007387 Walker A/P-loop; other site 406425007388 ATP binding site [chemical binding]; other site 406425007389 Q-loop/lid; other site 406425007390 ABC transporter signature motif; other site 406425007391 Walker B; other site 406425007392 D-loop; other site 406425007393 H-loop/switch region; other site 406425007394 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 406425007395 putative metal binding site; other site 406425007396 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 406425007397 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 406425007398 active site 406425007399 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 406425007400 O-Antigen ligase; Region: Wzy_C; pfam04932 406425007401 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425007402 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425007403 putative active site [active] 406425007404 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425007405 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425007406 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425007407 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 406425007408 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 406425007409 putative active site [active] 406425007410 putative PHP Thumb interface [polypeptide binding]; other site 406425007411 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 406425007412 generic binding surface II; other site 406425007413 generic binding surface I; other site 406425007414 rhodanese superfamily protein; Provisional; Region: PRK05320 406425007415 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 406425007416 active site residue [active] 406425007417 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 406425007418 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 406425007419 active site 406425007420 HIGH motif; other site 406425007421 nucleotide binding site [chemical binding]; other site 406425007422 active site 406425007423 KMSKS motif; other site 406425007424 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425007425 DEAD-like helicases superfamily; Region: DEXDc; smart00487 406425007426 ATP binding site [chemical binding]; other site 406425007427 Mg++ binding site [ion binding]; other site 406425007428 motif III; other site 406425007429 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425007430 nucleotide binding region [chemical binding]; other site 406425007431 ATP-binding site [chemical binding]; other site 406425007432 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 406425007433 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 406425007434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007435 ATP-grasp domain; Region: ATP-grasp; pfam02222 406425007436 META domain; Region: META; pfam03724 406425007437 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 406425007438 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 406425007439 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 406425007440 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 406425007441 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 406425007442 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 406425007443 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 406425007444 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 406425007445 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425007446 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425007447 ferredoxin; Provisional; Region: PRK08764 406425007448 Putative Fe-S cluster; Region: FeS; pfam04060 406425007449 4Fe-4S binding domain; Region: Fer4; pfam00037 406425007450 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 406425007451 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 406425007452 minor groove reading motif; other site 406425007453 helix-hairpin-helix signature motif; other site 406425007454 substrate binding pocket [chemical binding]; other site 406425007455 active site 406425007456 EamA-like transporter family; Region: EamA; pfam00892 406425007457 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425007458 EamA-like transporter family; Region: EamA; pfam00892 406425007459 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 406425007460 Cytochrome c553 [Energy production and conversion]; Region: COG2863 406425007461 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425007462 Cytochrome c553 [Energy production and conversion]; Region: COG2863 406425007463 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 406425007464 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425007465 Walker A motif; other site 406425007466 ATP binding site [chemical binding]; other site 406425007467 Walker B motif; other site 406425007468 arginine finger; other site 406425007469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 406425007470 Benzoate membrane transport protein; Region: BenE; pfam03594 406425007471 benzoate transporter; Region: benE; TIGR00843 406425007472 transaldolase-like protein; Provisional; Region: PTZ00411 406425007473 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 406425007474 active site 406425007475 dimer interface [polypeptide binding]; other site 406425007476 catalytic residue [active] 406425007477 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 406425007478 dimer interface [polypeptide binding]; other site 406425007479 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425007480 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 406425007481 Na binding site [ion binding]; other site 406425007482 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 406425007483 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 406425007484 conjugal transfer protein TraL; Provisional; Region: PRK13886 406425007485 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 406425007486 putative active site [active] 406425007487 Chorismate lyase; Region: Chor_lyase; cl01230 406425007488 heat shock protein 90; Provisional; Region: PRK05218 406425007489 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425007490 ATP binding site [chemical binding]; other site 406425007491 Mg2+ binding site [ion binding]; other site 406425007492 G-X-G motif; other site 406425007493 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425007494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425007495 DNA-binding site [nucleotide binding]; DNA binding site 406425007496 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425007497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425007498 homodimer interface [polypeptide binding]; other site 406425007499 catalytic residue [active] 406425007500 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 406425007501 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 406425007502 EamA-like transporter family; Region: EamA; pfam00892 406425007503 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 406425007504 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425007505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425007506 homodimer interface [polypeptide binding]; other site 406425007507 catalytic residue [active] 406425007508 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 406425007509 homotrimer interaction site [polypeptide binding]; other site 406425007510 putative active site [active] 406425007511 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 406425007512 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 406425007513 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425007514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425007515 metal binding site [ion binding]; metal-binding site 406425007516 active site 406425007517 I-site; other site 406425007518 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425007519 Chromate transporter; Region: Chromate_transp; pfam02417 406425007520 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 406425007521 Chromate transporter; Region: Chromate_transp; pfam02417 406425007522 Predicted membrane protein [Function unknown]; Region: COG4125 406425007523 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425007524 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425007525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425007526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425007527 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425007528 dimerization interface [polypeptide binding]; other site 406425007529 Copper resistance protein D; Region: CopD; cl00563 406425007530 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 406425007531 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 406425007532 CAP-like domain; other site 406425007533 active site 406425007534 primary dimer interface [polypeptide binding]; other site 406425007535 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425007536 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 406425007537 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425007538 ATP binding site [chemical binding]; other site 406425007539 Mg2+ binding site [ion binding]; other site 406425007540 G-X-G motif; other site 406425007541 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 406425007542 anchoring element; other site 406425007543 dimer interface [polypeptide binding]; other site 406425007544 ATP binding site [chemical binding]; other site 406425007545 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 406425007546 active site 406425007547 metal binding site [ion binding]; metal-binding site 406425007548 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 406425007549 ABC transporter ATPase component; Reviewed; Region: PRK11147 406425007550 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425007551 Walker A/P-loop; other site 406425007552 ATP binding site [chemical binding]; other site 406425007553 Q-loop/lid; other site 406425007554 ABC transporter signature motif; other site 406425007555 Walker B; other site 406425007556 D-loop; other site 406425007557 H-loop/switch region; other site 406425007558 ABC transporter; Region: ABC_tran_2; pfam12848 406425007559 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 406425007560 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 406425007561 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 406425007562 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425007563 S-adenosylmethionine binding site [chemical binding]; other site 406425007564 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 406425007565 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 406425007566 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425007567 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425007568 DNA binding residues [nucleotide binding] 406425007569 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425007570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007571 NAD(P) binding site [chemical binding]; other site 406425007572 active site 406425007573 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425007574 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425007575 ecotin; Provisional; Region: PRK03719 406425007576 secondary substrate binding site; other site 406425007577 primary substrate binding site; other site 406425007578 inhibition loop; other site 406425007579 dimerization interface [polypeptide binding]; other site 406425007580 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007581 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425007582 putative substrate translocation pore; other site 406425007583 Predicted ATPase [General function prediction only]; Region: COG3911 406425007584 AAA domain; Region: AAA_28; pfam13521 406425007585 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 406425007586 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 406425007587 active site 406425007588 homotetramer interface [polypeptide binding]; other site 406425007589 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425007590 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425007591 Walker A/P-loop; other site 406425007592 ATP binding site [chemical binding]; other site 406425007593 Q-loop/lid; other site 406425007594 ABC transporter signature motif; other site 406425007595 Walker B; other site 406425007596 D-loop; other site 406425007597 H-loop/switch region; other site 406425007598 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 406425007599 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 406425007600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007601 dimer interface [polypeptide binding]; other site 406425007602 conserved gate region; other site 406425007603 putative PBP binding loops; other site 406425007604 ABC-ATPase subunit interface; other site 406425007605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007606 dimer interface [polypeptide binding]; other site 406425007607 conserved gate region; other site 406425007608 putative PBP binding loops; other site 406425007609 ABC-ATPase subunit interface; other site 406425007610 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 406425007611 HAMP domain; Region: HAMP; pfam00672 406425007612 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425007613 dimer interface [polypeptide binding]; other site 406425007614 phosphorylation site [posttranslational modification] 406425007615 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425007616 ATP binding site [chemical binding]; other site 406425007617 Mg2+ binding site [ion binding]; other site 406425007618 G-X-G motif; other site 406425007619 osmolarity response regulator; Provisional; Region: ompR; PRK09468 406425007620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425007621 active site 406425007622 phosphorylation site [posttranslational modification] 406425007623 intermolecular recognition site; other site 406425007624 dimerization interface [polypeptide binding]; other site 406425007625 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425007626 DNA binding site [nucleotide binding] 406425007627 Heavy-metal resistance; Region: Metal_resist; pfam13801 406425007628 Pirin-related protein [General function prediction only]; Region: COG1741 406425007629 Pirin; Region: Pirin; pfam02678 406425007630 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425007631 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425007632 substrate binding pocket [chemical binding]; other site 406425007633 membrane-bound complex binding site; other site 406425007634 hinge residues; other site 406425007635 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425007636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007637 dimer interface [polypeptide binding]; other site 406425007638 conserved gate region; other site 406425007639 putative PBP binding loops; other site 406425007640 ABC-ATPase subunit interface; other site 406425007641 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425007642 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007643 dimer interface [polypeptide binding]; other site 406425007644 conserved gate region; other site 406425007645 putative PBP binding loops; other site 406425007646 ABC-ATPase subunit interface; other site 406425007647 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425007648 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425007649 Walker A/P-loop; other site 406425007650 ATP binding site [chemical binding]; other site 406425007651 Q-loop/lid; other site 406425007652 ABC transporter signature motif; other site 406425007653 Walker B; other site 406425007654 D-loop; other site 406425007655 H-loop/switch region; other site 406425007656 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425007657 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425007658 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 406425007659 putative substrate binding pocket [chemical binding]; other site 406425007660 dimerization interface [polypeptide binding]; other site 406425007661 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425007662 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425007663 trimer interface [polypeptide binding]; other site 406425007664 eyelet of channel; other site 406425007665 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 406425007666 Nitrogen regulatory protein P-II; Region: P-II; smart00938 406425007667 NAD synthetase; Provisional; Region: PRK13981 406425007668 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 406425007669 multimer interface [polypeptide binding]; other site 406425007670 active site 406425007671 catalytic triad [active] 406425007672 protein interface 1 [polypeptide binding]; other site 406425007673 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 406425007674 homodimer interface [polypeptide binding]; other site 406425007675 NAD binding pocket [chemical binding]; other site 406425007676 ATP binding pocket [chemical binding]; other site 406425007677 Mg binding site [ion binding]; other site 406425007678 active-site loop [active] 406425007679 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 406425007680 Protein of unknown function, DUF482; Region: DUF482; pfam04339 406425007681 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 406425007682 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 406425007683 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 406425007684 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 406425007685 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425007686 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425007687 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 406425007688 GIY-YIG motif/motif A; other site 406425007689 putative active site [active] 406425007690 putative metal binding site [ion binding]; other site 406425007691 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 406425007692 dimer interface [polypeptide binding]; other site 406425007693 substrate binding site [chemical binding]; other site 406425007694 metal binding sites [ion binding]; metal-binding site 406425007695 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425007696 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 406425007697 NAD(P) binding site [chemical binding]; other site 406425007698 catalytic residues [active] 406425007699 catalytic residues [active] 406425007700 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 406425007701 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 406425007702 putative NAD(P) binding site [chemical binding]; other site 406425007703 active site 406425007704 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425007705 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007706 putative substrate translocation pore; other site 406425007707 Helix-turn-helix domain; Region: HTH_17; pfam12728 406425007708 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425007709 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 406425007710 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 406425007711 HemY protein N-terminus; Region: HemY_N; pfam07219 406425007712 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425007713 TPR motif; other site 406425007714 binding surface 406425007715 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 406425007716 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 406425007717 active site 406425007718 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 406425007719 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 406425007720 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 406425007721 domain interfaces; other site 406425007722 active site 406425007723 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 406425007724 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 406425007725 Methyltransferase domain; Region: Methyltransf_31; pfam13847 406425007726 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425007727 S-adenosylmethionine binding site [chemical binding]; other site 406425007728 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425007729 non-specific DNA binding site [nucleotide binding]; other site 406425007730 salt bridge; other site 406425007731 sequence-specific DNA binding site [nucleotide binding]; other site 406425007732 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425007733 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425007734 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425007735 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425007736 argininosuccinate lyase; Provisional; Region: PRK00855 406425007737 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 406425007738 active sites [active] 406425007739 tetramer interface [polypeptide binding]; other site 406425007740 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 406425007741 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425007742 motif II; other site 406425007743 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 406425007744 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425007745 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 406425007746 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 406425007747 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425007748 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425007749 catalytic residue [active] 406425007750 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 406425007751 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 406425007752 trimer interface [polypeptide binding]; other site 406425007753 active site 406425007754 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 406425007755 E-class dimer interface [polypeptide binding]; other site 406425007756 P-class dimer interface [polypeptide binding]; other site 406425007757 active site 406425007758 Cu2+ binding site [ion binding]; other site 406425007759 Zn2+ binding site [ion binding]; other site 406425007760 Domain of unknown function DUF59; Region: DUF59; pfam01883 406425007761 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 406425007762 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 406425007763 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 406425007764 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425007765 ligand binding site [chemical binding]; other site 406425007766 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 406425007767 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 406425007768 active site 406425007769 HIGH motif; other site 406425007770 KMSKS motif; other site 406425007771 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 406425007772 tRNA binding surface [nucleotide binding]; other site 406425007773 anticodon binding site; other site 406425007774 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 406425007775 dimer interface [polypeptide binding]; other site 406425007776 putative tRNA-binding site [nucleotide binding]; other site 406425007777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 406425007778 Family of unknown function (DUF490); Region: DUF490; pfam04357 406425007779 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 406425007780 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 406425007781 Surface antigen; Region: Bac_surface_Ag; pfam01103 406425007782 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 406425007783 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 406425007784 pantoate--beta-alanine ligase; Region: panC; TIGR00018 406425007785 Pantoate-beta-alanine ligase; Region: PanC; cd00560 406425007786 active site 406425007787 ATP-binding site [chemical binding]; other site 406425007788 pantoate-binding site; other site 406425007789 HXXH motif; other site 406425007790 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 406425007791 tetramerization interface [polypeptide binding]; other site 406425007792 active site 406425007793 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 406425007794 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425007795 P-loop; other site 406425007796 Magnesium ion binding site [ion binding]; other site 406425007797 DoxX; Region: DoxX; pfam07681 406425007798 cobyric acid synthase; Provisional; Region: PRK00784 406425007799 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 406425007800 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 406425007801 catalytic triad [active] 406425007802 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 406425007803 homotrimer interface [polypeptide binding]; other site 406425007804 Walker A motif; other site 406425007805 GTP binding site [chemical binding]; other site 406425007806 Walker B motif; other site 406425007807 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 406425007808 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 406425007809 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 406425007810 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425007811 catalytic residue [active] 406425007812 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 406425007813 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 406425007814 cobalamin binding residues [chemical binding]; other site 406425007815 putative BtuC binding residues; other site 406425007816 dimer interface [polypeptide binding]; other site 406425007817 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425007818 catalytic core [active] 406425007819 cobalamin synthase; Reviewed; Region: cobS; PRK00235 406425007820 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 406425007821 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 406425007822 putative dimer interface [polypeptide binding]; other site 406425007823 active site pocket [active] 406425007824 putative cataytic base [active] 406425007825 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425007826 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 406425007827 Walker A/P-loop; other site 406425007828 ATP binding site [chemical binding]; other site 406425007829 Q-loop/lid; other site 406425007830 ABC transporter signature motif; other site 406425007831 Walker B; other site 406425007832 D-loop; other site 406425007833 H-loop/switch region; other site 406425007834 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 406425007835 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425007836 ABC-ATPase subunit interface; other site 406425007837 dimer interface [polypeptide binding]; other site 406425007838 putative PBP binding regions; other site 406425007839 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 406425007840 Cell division protein ZapA; Region: ZapA; pfam05164 406425007841 EVE domain; Region: EVE; cl00728 406425007842 Protein of unknown function (DUF541); Region: SIMPL; cl01077 406425007843 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 406425007844 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425007845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425007846 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 406425007847 putative dimerization interface [polypeptide binding]; other site 406425007848 putative substrate binding pocket [chemical binding]; other site 406425007849 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 406425007850 Cytochrome c; Region: Cytochrom_C; cl11414 406425007851 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 406425007852 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 406425007853 multifunctional aminopeptidase A; Provisional; Region: PRK00913 406425007854 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 406425007855 interface (dimer of trimers) [polypeptide binding]; other site 406425007856 Substrate-binding/catalytic site; other site 406425007857 Zn-binding sites [ion binding]; other site 406425007858 Predicted permeases [General function prediction only]; Region: COG0795 406425007859 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 406425007860 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 406425007861 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 406425007862 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 406425007863 putative active site [active] 406425007864 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 406425007865 active site 406425007866 SAM binding site [chemical binding]; other site 406425007867 homodimer interface [polypeptide binding]; other site 406425007868 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 406425007869 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 406425007870 CysD dimerization site [polypeptide binding]; other site 406425007871 G1 box; other site 406425007872 putative GEF interaction site [polypeptide binding]; other site 406425007873 GTP/Mg2+ binding site [chemical binding]; other site 406425007874 Switch I region; other site 406425007875 G2 box; other site 406425007876 G3 box; other site 406425007877 Switch II region; other site 406425007878 G4 box; other site 406425007879 G5 box; other site 406425007880 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 406425007881 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 406425007882 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 406425007883 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 406425007884 Active Sites [active] 406425007885 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 406425007886 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 406425007887 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 406425007888 Active Sites [active] 406425007889 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 406425007890 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 406425007891 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425007892 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425007893 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 406425007894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425007895 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 406425007896 substrate binding site [chemical binding]; other site 406425007897 dimerization interface [polypeptide binding]; other site 406425007898 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425007899 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 406425007900 putative ligand binding site [chemical binding]; other site 406425007901 integrase; Provisional; Region: PRK09692 406425007902 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 406425007903 active site 406425007904 Int/Topo IB signature motif; other site 406425007905 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 406425007906 Domain of unknown function (DUF927); Region: DUF927; pfam06048 406425007907 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 406425007908 multiple promoter invertase; Provisional; Region: mpi; PRK13413 406425007909 catalytic residues [active] 406425007910 catalytic nucleophile [active] 406425007911 Presynaptic Site I dimer interface [polypeptide binding]; other site 406425007912 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 406425007913 Synaptic Flat tetramer interface [polypeptide binding]; other site 406425007914 Synaptic Site I dimer interface [polypeptide binding]; other site 406425007915 DNA binding site [nucleotide binding] 406425007916 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 406425007917 DNA-binding interface [nucleotide binding]; DNA binding site 406425007918 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 406425007919 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 406425007920 putative NAD(P) binding site [chemical binding]; other site 406425007921 active site 406425007922 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425007923 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425007924 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 406425007925 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 406425007926 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425007927 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425007928 dimerization interface [polypeptide binding]; other site 406425007929 putative DNA binding site [nucleotide binding]; other site 406425007930 putative Zn2+ binding site [ion binding]; other site 406425007931 transcriptional activator TtdR; Provisional; Region: PRK09801 406425007932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425007933 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 406425007934 putative effector binding pocket; other site 406425007935 putative dimerization interface [polypeptide binding]; other site 406425007936 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425007937 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 406425007938 putative active site pocket [active] 406425007939 metal binding site [ion binding]; metal-binding site 406425007940 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425007941 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425007942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425007943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425007944 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425007945 putative effector binding pocket; other site 406425007946 dimerization interface [polypeptide binding]; other site 406425007947 short chain dehydrogenase; Provisional; Region: PRK12937 406425007948 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 406425007949 NADP binding site [chemical binding]; other site 406425007950 homodimer interface [polypeptide binding]; other site 406425007951 active site 406425007952 substrate binding site [chemical binding]; other site 406425007953 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425007954 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425007955 NADP binding site [chemical binding]; other site 406425007956 active site 406425007957 steroid binding site; other site 406425007958 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425007959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425007960 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425007961 dimerization interface [polypeptide binding]; other site 406425007962 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425007963 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425007964 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425007965 putative effector binding pocket; other site 406425007966 putative dimerization interface [polypeptide binding]; other site 406425007967 short chain dehydrogenase; Provisional; Region: PRK12744 406425007968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007969 NAD(P) binding site [chemical binding]; other site 406425007970 active site 406425007971 DinB superfamily; Region: DinB_2; pfam12867 406425007972 CopC domain; Region: CopC; cl01012 406425007973 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 406425007974 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 406425007975 active site 406425007976 uracil binding [chemical binding]; other site 406425007977 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425007978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007979 NAD(P) binding site [chemical binding]; other site 406425007980 active site 406425007981 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 406425007982 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425007983 catalytic loop [active] 406425007984 iron binding site [ion binding]; other site 406425007985 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 406425007986 FAD binding pocket [chemical binding]; other site 406425007987 FAD binding motif [chemical binding]; other site 406425007988 phosphate binding motif [ion binding]; other site 406425007989 beta-alpha-beta structure motif; other site 406425007990 NAD binding pocket [chemical binding]; other site 406425007991 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 406425007992 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425007993 inhibitor-cofactor binding pocket; inhibition site 406425007994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425007995 catalytic residue [active] 406425007996 putative acetyltransferase; Provisional; Region: PRK03624 406425007997 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425007998 Coenzyme A binding pocket [chemical binding]; other site 406425007999 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 406425008000 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425008001 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425008002 Walker A/P-loop; other site 406425008003 ATP binding site [chemical binding]; other site 406425008004 Q-loop/lid; other site 406425008005 ABC transporter signature motif; other site 406425008006 Walker B; other site 406425008007 D-loop; other site 406425008008 H-loop/switch region; other site 406425008009 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425008010 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425008011 Walker A/P-loop; other site 406425008012 ATP binding site [chemical binding]; other site 406425008013 Q-loop/lid; other site 406425008014 ABC transporter signature motif; other site 406425008015 Walker B; other site 406425008016 D-loop; other site 406425008017 H-loop/switch region; other site 406425008018 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425008019 TM-ABC transporter signature motif; other site 406425008020 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425008021 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425008022 TM-ABC transporter signature motif; other site 406425008023 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 406425008024 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 406425008025 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 406425008026 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 406425008027 hypothetical protein; Reviewed; Region: PRK00024 406425008028 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 406425008029 MPN+ (JAMM) motif; other site 406425008030 Zinc-binding site [ion binding]; other site 406425008031 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 406425008032 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 406425008033 L-aspartate oxidase; Provisional; Region: PRK09077 406425008034 L-aspartate oxidase; Provisional; Region: PRK06175 406425008035 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 406425008036 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 406425008037 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 406425008038 dimerization interface [polypeptide binding]; other site 406425008039 active site 406425008040 quinolinate synthetase; Provisional; Region: PRK09375 406425008041 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 406425008042 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425008043 Di-iron ligands [ion binding]; other site 406425008044 Transposase; Region: DDE_Tnp_ISL3; pfam01610 406425008045 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 406425008046 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425008047 ribosomal RNA small subunit methyltransferase RsmB; Region: rsmB; TIGR00563 406425008048 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425008049 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 406425008050 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 406425008051 active site 406425008052 substrate binding site [chemical binding]; other site 406425008053 cosubstrate binding site; other site 406425008054 catalytic site [active] 406425008055 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 406425008056 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 406425008057 active site 406425008058 Riboflavin kinase; Region: Flavokinase; smart00904 406425008059 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 406425008060 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425008061 active site 406425008062 HIGH motif; other site 406425008063 nucleotide binding site [chemical binding]; other site 406425008064 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 406425008065 active site 406425008066 KMSKS motif; other site 406425008067 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 406425008068 tRNA binding surface [nucleotide binding]; other site 406425008069 anticodon binding site; other site 406425008070 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 406425008071 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 406425008072 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 406425008073 Flavoprotein; Region: Flavoprotein; pfam02441 406425008074 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 406425008075 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 406425008076 trimer interface [polypeptide binding]; other site 406425008077 active site 406425008078 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 406425008079 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 406425008080 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 406425008081 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 406425008082 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 406425008083 Clp amino terminal domain; Region: Clp_N; pfam02861 406425008084 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425008085 Walker A motif; other site 406425008086 ATP binding site [chemical binding]; other site 406425008087 Walker B motif; other site 406425008088 arginine finger; other site 406425008089 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425008090 Walker A motif; other site 406425008091 ATP binding site [chemical binding]; other site 406425008092 Walker B motif; other site 406425008093 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 406425008094 Uncharacterized conserved protein [Function unknown]; Region: COG2127 406425008095 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 406425008096 DNA-binding site [nucleotide binding]; DNA binding site 406425008097 RNA-binding motif; other site 406425008098 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 406425008099 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 406425008100 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 406425008101 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 406425008102 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 406425008103 isocitrate dehydrogenase; Validated; Region: PRK07362 406425008104 isocitrate dehydrogenase; Reviewed; Region: PRK07006 406425008105 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 406425008106 pseudouridine synthase; Region: TIGR00093 406425008107 active site 406425008108 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 406425008109 elongation factor G; Reviewed; Region: PRK00007 406425008110 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 406425008111 G1 box; other site 406425008112 putative GEF interaction site [polypeptide binding]; other site 406425008113 GTP/Mg2+ binding site [chemical binding]; other site 406425008114 Switch I region; other site 406425008115 G2 box; other site 406425008116 G3 box; other site 406425008117 Switch II region; other site 406425008118 G4 box; other site 406425008119 G5 box; other site 406425008120 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 406425008121 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 406425008122 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 406425008123 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 406425008124 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425008125 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425008126 active site 406425008127 catalytic tetrad [active] 406425008128 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 406425008129 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425008130 DNA-binding site [nucleotide binding]; DNA binding site 406425008131 UTRA domain; Region: UTRA; pfam07702 406425008132 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425008133 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425008134 MerR family regulatory protein; Region: MerR; pfam00376 406425008135 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 406425008136 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 406425008137 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 406425008138 dimer interface [polypeptide binding]; other site 406425008139 active site 406425008140 oxalacetate/citrate binding site [chemical binding]; other site 406425008141 citrylCoA binding site [chemical binding]; other site 406425008142 coenzyme A binding site [chemical binding]; other site 406425008143 catalytic triad [active] 406425008144 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 406425008145 putative transporter; Provisional; Region: PRK10504 406425008146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008147 putative substrate translocation pore; other site 406425008148 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425008149 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 406425008150 S-adenosylmethionine binding site [chemical binding]; other site 406425008151 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 406425008152 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 406425008153 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425008154 Predicted membrane protein [Function unknown]; Region: COG4539 406425008155 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425008156 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425008157 ligand binding site [chemical binding]; other site 406425008158 flexible hinge region; other site 406425008159 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 406425008160 putative switch regulator; other site 406425008161 non-specific DNA interactions [nucleotide binding]; other site 406425008162 DNA binding site [nucleotide binding] 406425008163 sequence specific DNA binding site [nucleotide binding]; other site 406425008164 putative cAMP binding site [chemical binding]; other site 406425008165 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 406425008166 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 406425008167 Chromate transporter; Region: Chromate_transp; pfam02417 406425008168 superoxide dismutase; Provisional; Region: PRK10543 406425008169 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 406425008170 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 406425008171 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 406425008172 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 406425008173 generic binding surface II; other site 406425008174 generic binding surface I; other site 406425008175 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 406425008176 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 406425008177 Uncharacterized conserved protein [Function unknown]; Region: COG2835 406425008178 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 406425008179 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 406425008180 Ligand binding site; other site 406425008181 oligomer interface; other site 406425008182 adenylate kinase; Reviewed; Region: adk; PRK00279 406425008183 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 406425008184 AMP-binding site [chemical binding]; other site 406425008185 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 406425008186 Uncharacterized conserved protein [Function unknown]; Region: COG2912 406425008187 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 406425008188 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 406425008189 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 406425008190 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 406425008191 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 406425008192 ornithine carbamoyltransferase; Provisional; Region: PRK00779 406425008193 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 406425008194 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 406425008195 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 406425008196 FAD binding domain; Region: FAD_binding_4; pfam01565 406425008197 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 406425008198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 406425008199 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 406425008200 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 406425008201 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 406425008202 putative deacylase active site [active] 406425008203 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425008204 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425008205 acyl-activating enzyme (AAE) consensus motif; other site 406425008206 AMP binding site [chemical binding]; other site 406425008207 active site 406425008208 CoA binding site [chemical binding]; other site 406425008209 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 406425008210 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 406425008211 active site 406425008212 Int/Topo IB signature motif; other site 406425008213 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 406425008214 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 406425008215 DNA binding site [nucleotide binding] 406425008216 active site 406425008217 epoxyqueuosine reductase; Region: TIGR00276 406425008218 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 406425008219 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 406425008220 AMIN domain; Region: AMIN; pfam11741 406425008221 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 406425008222 active site 406425008223 metal binding site [ion binding]; metal-binding site 406425008224 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 406425008225 EamA-like transporter family; Region: EamA; cl17759 406425008226 EamA-like transporter family; Region: EamA; pfam00892 406425008227 Pirin-related protein [General function prediction only]; Region: COG1741 406425008228 Pirin; Region: Pirin; pfam02678 406425008229 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 406425008230 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 406425008231 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425008232 catalytic residues [active] 406425008233 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 406425008234 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 406425008235 putative ATP binding site [chemical binding]; other site 406425008236 putative substrate interface [chemical binding]; other site 406425008237 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 406425008238 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 406425008239 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 406425008240 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 406425008241 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425008242 S-adenosylmethionine binding site [chemical binding]; other site 406425008243 Protein of unknown function DUF72; Region: DUF72; pfam01904 406425008244 methionine sulfoxide reductase A; Provisional; Region: PRK14054 406425008245 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 406425008246 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 406425008247 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425008248 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425008249 putative DNA binding site [nucleotide binding]; other site 406425008250 putative Zn2+ binding site [ion binding]; other site 406425008251 AsnC family; Region: AsnC_trans_reg; pfam01037 406425008252 arylformamidase; Region: trp_arylform; TIGR03035 406425008253 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 406425008254 kynureninase; Region: kynureninase; TIGR01814 406425008255 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425008256 catalytic residue [active] 406425008257 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 406425008258 benzoate transport; Region: 2A0115; TIGR00895 406425008259 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008260 putative substrate translocation pore; other site 406425008261 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 406425008262 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 406425008263 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425008264 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425008265 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 406425008266 NAD(P) binding site [chemical binding]; other site 406425008267 catalytic residues [active] 406425008268 benzoylformate decarboxylase; Reviewed; Region: PRK07092 406425008269 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425008270 PYR/PP interface [polypeptide binding]; other site 406425008271 dimer interface [polypeptide binding]; other site 406425008272 TPP binding site [chemical binding]; other site 406425008273 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425008274 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 406425008275 TPP-binding site [chemical binding]; other site 406425008276 dimer interface [polypeptide binding]; other site 406425008277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425008278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425008279 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 406425008280 putative dimerization interface [polypeptide binding]; other site 406425008281 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 406425008282 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 406425008283 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 406425008284 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 406425008285 N- and C-terminal domain interface [polypeptide binding]; other site 406425008286 D-xylulose kinase; Region: XylB; TIGR01312 406425008287 active site 406425008288 MgATP binding site [chemical binding]; other site 406425008289 catalytic site [active] 406425008290 metal binding site [ion binding]; metal-binding site 406425008291 xylulose binding site [chemical binding]; other site 406425008292 homodimer interface [polypeptide binding]; other site 406425008293 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 406425008294 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 406425008295 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425008296 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008297 putative substrate translocation pore; other site 406425008298 Beta-lactamase; Region: Beta-lactamase; pfam00144 406425008299 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 406425008300 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425008301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425008302 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 406425008303 putative effector binding pocket; other site 406425008304 putative dimerization interface [polypeptide binding]; other site 406425008305 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 406425008306 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 406425008307 Walker A/P-loop; other site 406425008308 ATP binding site [chemical binding]; other site 406425008309 Q-loop/lid; other site 406425008310 ABC transporter signature motif; other site 406425008311 Walker B; other site 406425008312 D-loop; other site 406425008313 H-loop/switch region; other site 406425008314 TOBE domain; Region: TOBE; pfam03459 406425008315 TOBE domain; Region: TOBE_2; pfam08402 406425008316 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 406425008317 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425008318 motif II; other site 406425008319 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425008320 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425008321 dimer interface [polypeptide binding]; other site 406425008322 conserved gate region; other site 406425008323 putative PBP binding loops; other site 406425008324 ABC-ATPase subunit interface; other site 406425008325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425008326 dimer interface [polypeptide binding]; other site 406425008327 conserved gate region; other site 406425008328 putative PBP binding loops; other site 406425008329 ABC-ATPase subunit interface; other site 406425008330 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 406425008331 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425008332 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 406425008333 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 406425008334 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425008335 substrate binding site [chemical binding]; other site 406425008336 ATP binding site [chemical binding]; other site 406425008337 sorbitol dehydrogenase; Provisional; Region: PRK07067 406425008338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425008339 NAD(P) binding site [chemical binding]; other site 406425008340 active site 406425008341 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 406425008342 metal binding site 2 [ion binding]; metal-binding site 406425008343 putative DNA binding helix; other site 406425008344 metal binding site 1 [ion binding]; metal-binding site 406425008345 dimer interface [polypeptide binding]; other site 406425008346 structural Zn2+ binding site [ion binding]; other site 406425008347 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 406425008348 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 406425008349 metal binding site [ion binding]; metal-binding site 406425008350 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 406425008351 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 406425008352 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 406425008353 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 406425008354 ABC-ATPase subunit interface; other site 406425008355 dimer interface [polypeptide binding]; other site 406425008356 S-formylglutathione hydrolase; Region: PLN02442 406425008357 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 406425008358 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 406425008359 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 406425008360 substrate binding site [chemical binding]; other site 406425008361 catalytic Zn binding site [ion binding]; other site 406425008362 NAD binding site [chemical binding]; other site 406425008363 structural Zn binding site [ion binding]; other site 406425008364 dimer interface [polypeptide binding]; other site 406425008365 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 406425008366 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 406425008367 nucleotide binding site [chemical binding]; other site 406425008368 xanthine permease; Region: pbuX; TIGR03173 406425008369 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 406425008370 ligand binding site [chemical binding]; other site 406425008371 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 406425008372 putative active site [active] 406425008373 putative Zn binding site [ion binding]; other site 406425008374 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 406425008375 PAAR motif; Region: PAAR_motif; pfam05488 406425008376 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 406425008377 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425008378 Protein export membrane protein; Region: SecD_SecF; cl14618 406425008379 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425008380 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 406425008381 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425008382 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425008383 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 406425008384 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425008385 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 406425008386 Isochorismatase family; Region: Isochorismatase; pfam00857 406425008387 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 406425008388 catalytic triad [active] 406425008389 conserved cis-peptide bond; other site 406425008390 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 406425008391 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425008392 conserved cys residue [active] 406425008393 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425008394 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425008395 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425008396 hydrophobic ligand binding site; other site 406425008397 Domain of unknown function (DUF427); Region: DUF427; pfam04248 406425008398 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 406425008399 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 406425008400 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 406425008401 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425008402 protein binding site [polypeptide binding]; other site 406425008403 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425008404 protein binding site [polypeptide binding]; other site 406425008405 sensor protein QseC; Provisional; Region: PRK10337 406425008406 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425008407 dimer interface [polypeptide binding]; other site 406425008408 phosphorylation site [posttranslational modification] 406425008409 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425008410 ATP binding site [chemical binding]; other site 406425008411 Mg2+ binding site [ion binding]; other site 406425008412 G-X-G motif; other site 406425008413 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 406425008414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425008415 active site 406425008416 phosphorylation site [posttranslational modification] 406425008417 intermolecular recognition site; other site 406425008418 dimerization interface [polypeptide binding]; other site 406425008419 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425008420 DNA binding site [nucleotide binding] 406425008421 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 406425008422 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 406425008423 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 406425008424 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 406425008425 active site 406425008426 catalytic triad [active] 406425008427 oxyanion hole [active] 406425008428 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 406425008429 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 406425008430 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 406425008431 ATP-grasp domain; Region: ATP-grasp; pfam02222 406425008432 AIR carboxylase; Region: AIRC; pfam00731 406425008433 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 406425008434 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 406425008435 ATP binding site [chemical binding]; other site 406425008436 active site 406425008437 substrate binding site [chemical binding]; other site 406425008438 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 406425008439 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 406425008440 intersubunit interface [polypeptide binding]; other site 406425008441 active site 406425008442 zinc binding site [ion binding]; other site 406425008443 Na+ binding site [ion binding]; other site 406425008444 pyruvate kinase; Provisional; Region: PRK05826 406425008445 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 406425008446 domain interfaces; other site 406425008447 active site 406425008448 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 406425008449 Phosphoglycerate kinase; Region: PGK; pfam00162 406425008450 substrate binding site [chemical binding]; other site 406425008451 hinge regions; other site 406425008452 ADP binding site [chemical binding]; other site 406425008453 catalytic site [active] 406425008454 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 406425008455 AzlC protein; Region: AzlC; cl00570 406425008456 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 406425008457 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 406425008458 homodimer interface [polypeptide binding]; other site 406425008459 substrate-cofactor binding pocket; other site 406425008460 catalytic residue [active] 406425008461 Zinc-finger domain; Region: zf-CHCC; cl01821 406425008462 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425008463 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425008464 putative active site [active] 406425008465 SnoaL-like domain; Region: SnoaL_3; pfam13474 406425008466 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 406425008467 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 406425008468 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 406425008469 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 406425008470 Peptidase family M48; Region: Peptidase_M48; pfam01435 406425008471 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 406425008472 trimer interface [polypeptide binding]; other site 406425008473 dimer interface [polypeptide binding]; other site 406425008474 putative active site [active] 406425008475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425008476 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 406425008477 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425008478 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425008479 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 406425008480 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 406425008481 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 406425008482 O-Antigen ligase; Region: Wzy_C; pfam04932 406425008483 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 406425008484 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 406425008485 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 406425008486 Pilin (bacterial filament); Region: Pilin; pfam00114 406425008487 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 406425008488 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 406425008489 CoA binding domain; Region: CoA_binding; smart00881 406425008490 CoA-ligase; Region: Ligase_CoA; pfam00549 406425008491 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 406425008492 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 406425008493 CoA-ligase; Region: Ligase_CoA; pfam00549 406425008494 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 406425008495 recombination regulator RecX; Provisional; Region: recX; PRK14136 406425008496 recombinase A; Provisional; Region: recA; PRK09354 406425008497 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 406425008498 hexamer interface [polypeptide binding]; other site 406425008499 Walker A motif; other site 406425008500 ATP binding site [chemical binding]; other site 406425008501 Walker B motif; other site 406425008502 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425008503 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425008504 active site 406425008505 phosphorylation site [posttranslational modification] 406425008506 intermolecular recognition site; other site 406425008507 dimerization interface [polypeptide binding]; other site 406425008508 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425008509 DNA binding site [nucleotide binding] 406425008510 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425008511 HAMP domain; Region: HAMP; pfam00672 406425008512 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425008513 dimer interface [polypeptide binding]; other site 406425008514 phosphorylation site [posttranslational modification] 406425008515 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425008516 ATP binding site [chemical binding]; other site 406425008517 Mg2+ binding site [ion binding]; other site 406425008518 G-X-G motif; other site 406425008519 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008520 putative substrate translocation pore; other site 406425008521 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425008522 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425008523 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425008524 putative effector binding pocket; other site 406425008525 putative dimerization interface [polypeptide binding]; other site 406425008526 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425008527 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425008528 conserved cys residue [active] 406425008529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425008530 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425008531 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 406425008532 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 406425008533 conserved cys residue [active] 406425008534 Cupin domain; Region: Cupin_2; cl17218 406425008535 PAAR motif; Region: PAAR_motif; pfam05488 406425008536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425008537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425008538 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425008539 putative effector binding pocket; other site 406425008540 dimerization interface [polypeptide binding]; other site 406425008541 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 406425008542 Transglycosylase; Region: Transgly; cl17702 406425008543 Uncharacterized conserved protein [Function unknown]; Region: COG3791 406425008544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 406425008545 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 406425008546 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425008547 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425008548 DNA-binding site [nucleotide binding]; DNA binding site 406425008549 FCD domain; Region: FCD; pfam07729 406425008550 galactonate dehydratase; Provisional; Region: PRK14017 406425008551 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 406425008552 putative active site pocket [active] 406425008553 putative metal binding site [ion binding]; other site 406425008554 Copper resistance protein D; Region: CopD; pfam05425 406425008555 Cytochrome c; Region: Cytochrom_C; cl11414 406425008556 Cytochrome c; Region: Cytochrom_C; cl11414 406425008557 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425008558 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425008559 Cytochrome c; Region: Cytochrom_C; pfam00034 406425008560 helicase 45; Provisional; Region: PTZ00424 406425008561 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425008562 ATP binding site [chemical binding]; other site 406425008563 Mg++ binding site [ion binding]; other site 406425008564 motif III; other site 406425008565 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425008566 nucleotide binding region [chemical binding]; other site 406425008567 ATP-binding site [chemical binding]; other site 406425008568 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 406425008569 dinuclear metal binding motif [ion binding]; other site 406425008570 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 406425008571 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425008572 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 406425008573 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 406425008574 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 406425008575 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 406425008576 glycerol kinase; Provisional; Region: glpK; PRK00047 406425008577 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 406425008578 N- and C-terminal domain interface [polypeptide binding]; other site 406425008579 active site 406425008580 MgATP binding site [chemical binding]; other site 406425008581 catalytic site [active] 406425008582 metal binding site [ion binding]; metal-binding site 406425008583 glycerol binding site [chemical binding]; other site 406425008584 homotetramer interface [polypeptide binding]; other site 406425008585 homodimer interface [polypeptide binding]; other site 406425008586 FBP binding site [chemical binding]; other site 406425008587 protein IIAGlc interface [polypeptide binding]; other site 406425008588 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 406425008589 amphipathic channel; other site 406425008590 Asn-Pro-Ala signature motifs; other site 406425008591 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 406425008592 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425008593 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 406425008594 [2Fe-2S] cluster binding site [ion binding]; other site 406425008595 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 406425008596 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 406425008597 putative di-iron ligands [ion binding]; other site 406425008598 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425008599 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 406425008600 putative ligand binding site [chemical binding]; other site 406425008601 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425008602 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 406425008603 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 406425008604 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 406425008605 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 406425008606 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 406425008607 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425008608 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 406425008609 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 406425008610 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425008611 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425008612 non-specific DNA binding site [nucleotide binding]; other site 406425008613 salt bridge; other site 406425008614 sequence-specific DNA binding site [nucleotide binding]; other site 406425008615 Cupin domain; Region: Cupin_2; pfam07883 406425008616 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008617 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425008618 putative substrate translocation pore; other site 406425008619 transcriptional regulator; Provisional; Region: PRK10632 406425008620 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425008621 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425008622 putative effector binding pocket; other site 406425008623 dimerization interface [polypeptide binding]; other site 406425008624 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 406425008625 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 406425008626 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425008627 FeS/SAM binding site; other site 406425008628 TRAM domain; Region: TRAM; pfam01938 406425008629 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 406425008630 PhoH-like protein; Region: PhoH; pfam02562 406425008631 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 406425008632 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 406425008633 putative active site pocket [active] 406425008634 dimerization interface [polypeptide binding]; other site 406425008635 putative catalytic residue [active] 406425008636 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 406425008637 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 406425008638 Transporter associated domain; Region: CorC_HlyC; smart01091 406425008639 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 406425008640 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 406425008641 putative active site [active] 406425008642 catalytic triad [active] 406425008643 putative dimer interface [polypeptide binding]; other site 406425008644 TPR repeat; Region: TPR_11; pfam13414 406425008645 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425008646 binding surface 406425008647 TPR motif; other site 406425008648 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425008649 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 406425008650 dimer interface [polypeptide binding]; other site 406425008651 motif 1; other site 406425008652 active site 406425008653 motif 2; other site 406425008654 motif 3; other site 406425008655 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 406425008656 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 406425008657 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 406425008658 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425008659 active site 406425008660 motif I; other site 406425008661 motif II; other site 406425008662 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 406425008663 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 406425008664 putative acyl-acceptor binding pocket; other site 406425008665 Protein of unknown function DUF45; Region: DUF45; pfam01863 406425008666 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425008667 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 406425008668 dimer interface [polypeptide binding]; other site 406425008669 active site 406425008670 metal binding site [ion binding]; metal-binding site 406425008671 glutathione binding site [chemical binding]; other site 406425008672 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 406425008673 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 406425008674 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 406425008675 SurA N-terminal domain; Region: SurA_N; pfam09312 406425008676 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 406425008677 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 406425008678 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 406425008679 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 406425008680 Organic solvent tolerance protein; Region: OstA_C; pfam04453 406425008681 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 406425008682 Phosphotransferase enzyme family; Region: APH; pfam01636 406425008683 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 406425008684 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 406425008685 Substrate binding site; other site 406425008686 metal-binding site 406425008687 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 406425008688 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 406425008689 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 406425008690 Walker A/P-loop; other site 406425008691 ATP binding site [chemical binding]; other site 406425008692 Q-loop/lid; other site 406425008693 ABC transporter signature motif; other site 406425008694 Walker B; other site 406425008695 D-loop; other site 406425008696 H-loop/switch region; other site 406425008697 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 406425008698 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 406425008699 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 406425008700 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425008701 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425008702 substrate binding site [chemical binding]; other site 406425008703 oxyanion hole (OAH) forming residues; other site 406425008704 trimer interface [polypeptide binding]; other site 406425008705 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 406425008706 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 406425008707 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425008708 dimer interface [polypeptide binding]; other site 406425008709 active site 406425008710 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 406425008711 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 406425008712 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425008713 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425008714 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425008715 substrate binding site [chemical binding]; other site 406425008716 oxyanion hole (OAH) forming residues; other site 406425008717 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 406425008718 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 406425008719 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 406425008720 FAD binding site [chemical binding]; other site 406425008721 substrate binding site [chemical binding]; other site 406425008722 catalytic residues [active] 406425008723 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 406425008724 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425008725 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425008726 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 406425008727 PLD-like domain; Region: PLDc_2; pfam13091 406425008728 putative active site [active] 406425008729 catalytic site [active] 406425008730 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 406425008731 PLD-like domain; Region: PLDc_2; pfam13091 406425008732 putative active site [active] 406425008733 catalytic site [active] 406425008734 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 406425008735 nudix motif; other site 406425008736 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 406425008737 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 406425008738 dimer interface [polypeptide binding]; other site 406425008739 anticodon binding site; other site 406425008740 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 406425008741 homodimer interface [polypeptide binding]; other site 406425008742 motif 1; other site 406425008743 active site 406425008744 motif 2; other site 406425008745 GAD domain; Region: GAD; pfam02938 406425008746 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 406425008747 motif 3; other site 406425008748 Uncharacterized conserved protein [Function unknown]; Region: COG2928 406425008749 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 406425008750 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 406425008751 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 406425008752 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 406425008753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 406425008754 SCP-2 sterol transfer family; Region: SCP2; pfam02036 406425008755 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 406425008756 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 406425008757 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425008758 S-adenosylmethionine binding site [chemical binding]; other site 406425008759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 406425008760 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 406425008761 nucleotide binding site/active site [active] 406425008762 HIT family signature motif; other site 406425008763 catalytic residue [active] 406425008764 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 406425008765 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425008766 FAD binding domain; Region: FAD_binding_4; pfam01565 406425008767 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425008768 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 406425008769 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 406425008770 Cysteine-rich domain; Region: CCG; pfam02754 406425008771 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 406425008772 threonine dehydratase; Reviewed; Region: PRK09224 406425008773 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 406425008774 tetramer interface [polypeptide binding]; other site 406425008775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425008776 catalytic residue [active] 406425008777 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 406425008778 putative Ile/Val binding site [chemical binding]; other site 406425008779 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 406425008780 putative Ile/Val binding site [chemical binding]; other site 406425008781 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 406425008782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 406425008783 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 406425008784 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 406425008785 homotrimer interaction site [polypeptide binding]; other site 406425008786 putative active site [active] 406425008787 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 406425008788 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 406425008789 active site 406425008790 putative substrate binding pocket [chemical binding]; other site 406425008791 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425008792 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425008793 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425008794 putative active site [active] 406425008795 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 406425008796 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 406425008797 dimer interface [polypeptide binding]; other site 406425008798 active site 406425008799 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425008800 substrate binding site [chemical binding]; other site 406425008801 catalytic residue [active] 406425008802 intracellular protease, PfpI family; Region: PfpI; TIGR01382 406425008803 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 406425008804 conserved cys residue [active] 406425008805 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425008806 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 406425008807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008808 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425008809 putative substrate translocation pore; other site 406425008810 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008811 EcsC protein family; Region: EcsC; pfam12787 406425008812 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425008813 CHRD domain; Region: CHRD; pfam07452 406425008814 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 406425008815 aldolase II superfamily protein; Provisional; Region: PRK07044 406425008816 intersubunit interface [polypeptide binding]; other site 406425008817 active site 406425008818 Zn2+ binding site [ion binding]; other site 406425008819 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 406425008820 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 406425008821 putative active site [active] 406425008822 catalytic site [active] 406425008823 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 406425008824 putative active site [active] 406425008825 catalytic site [active] 406425008826 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 406425008827 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 406425008828 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 406425008829 NAD(P) binding site [chemical binding]; other site 406425008830 homotetramer interface [polypeptide binding]; other site 406425008831 homodimer interface [polypeptide binding]; other site 406425008832 active site 406425008833 putative acyltransferase; Provisional; Region: PRK05790 406425008834 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425008835 dimer interface [polypeptide binding]; other site 406425008836 active site 406425008837 Phasin protein; Region: Phasin_2; pfam09361 406425008838 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 406425008839 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425008840 P-loop; other site 406425008841 Magnesium ion binding site [ion binding]; other site 406425008842 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425008843 Magnesium ion binding site [ion binding]; other site 406425008844 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 406425008845 active site 406425008846 DNA binding site [nucleotide binding] 406425008847 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 406425008848 active site 406425008849 SUMO-1 interface [polypeptide binding]; other site 406425008850 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 406425008851 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 406425008852 dimer interface [polypeptide binding]; other site 406425008853 ssDNA binding site [nucleotide binding]; other site 406425008854 tetramer (dimer of dimers) interface [polypeptide binding]; other site 406425008855 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008856 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425008857 putative substrate translocation pore; other site 406425008858 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 406425008859 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 406425008860 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 406425008861 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 406425008862 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 406425008863 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 406425008864 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 406425008865 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 406425008866 putative active site [active] 406425008867 putative substrate binding site [chemical binding]; other site 406425008868 putative cosubstrate binding site; other site 406425008869 catalytic site [active] 406425008870 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 406425008871 nudix motif; other site 406425008872 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425008873 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425008874 active site 406425008875 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 406425008876 TrkA-N domain; Region: TrkA_N; pfam02254 406425008877 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 406425008878 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 406425008879 putative active site [active] 406425008880 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 406425008881 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 406425008882 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 406425008883 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 406425008884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 406425008885 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 406425008886 OstA-like protein; Region: OstA; pfam03968 406425008887 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 406425008888 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 406425008889 Walker A/P-loop; other site 406425008890 ATP binding site [chemical binding]; other site 406425008891 Q-loop/lid; other site 406425008892 ABC transporter signature motif; other site 406425008893 Walker B; other site 406425008894 D-loop; other site 406425008895 H-loop/switch region; other site 406425008896 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 406425008897 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 406425008898 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 406425008899 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 406425008900 30S subunit binding site; other site 406425008901 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 406425008902 active site 406425008903 phosphorylation site [posttranslational modification] 406425008904 HPr kinase/phosphorylase; Provisional; Region: PRK05428 406425008905 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 406425008906 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 406425008907 Hpr binding site; other site 406425008908 active site 406425008909 homohexamer subunit interaction site [polypeptide binding]; other site 406425008910 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 406425008911 AAA domain; Region: AAA_18; pfam13238 406425008912 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 406425008913 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 406425008914 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 406425008915 minor groove reading motif; other site 406425008916 helix-hairpin-helix signature motif; other site 406425008917 substrate binding pocket [chemical binding]; other site 406425008918 active site 406425008919 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 406425008920 DNA binding and oxoG recognition site [nucleotide binding] 406425008921 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 406425008922 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 406425008923 DNA binding site [nucleotide binding] 406425008924 catalytic residue [active] 406425008925 H2TH interface [polypeptide binding]; other site 406425008926 putative catalytic residues [active] 406425008927 turnover-facilitating residue; other site 406425008928 intercalation triad [nucleotide binding]; other site 406425008929 8OG recognition residue [nucleotide binding]; other site 406425008930 putative reading head residues; other site 406425008931 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 406425008932 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 406425008933 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425008934 binding surface 406425008935 TPR motif; other site 406425008936 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425008937 TPR motif; other site 406425008938 binding surface 406425008939 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 406425008940 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425008941 binding surface 406425008942 TPR motif; other site 406425008943 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425008944 binding surface 406425008945 TPR motif; other site 406425008946 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 406425008947 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 406425008948 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 406425008949 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 406425008950 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 406425008951 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 406425008952 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425008953 active site 406425008954 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 406425008955 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 406425008956 5S rRNA interface [nucleotide binding]; other site 406425008957 CTC domain interface [polypeptide binding]; other site 406425008958 L16 interface [polypeptide binding]; other site 406425008959 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 406425008960 putative active site [active] 406425008961 catalytic residue [active] 406425008962 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 406425008963 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425008964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425008965 homodimer interface [polypeptide binding]; other site 406425008966 catalytic residue [active] 406425008967 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 406425008968 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 406425008969 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 406425008970 active site 406425008971 (T/H)XGH motif; other site 406425008972 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 406425008973 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425008974 S-adenosylmethionine binding site [chemical binding]; other site 406425008975 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 406425008976 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 406425008977 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 406425008978 P loop; other site 406425008979 GTP binding site [chemical binding]; other site 406425008980 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 406425008981 maleylacetoacetate isomerase; Region: maiA; TIGR01262 406425008982 C-terminal domain interface [polypeptide binding]; other site 406425008983 GSH binding site (G-site) [chemical binding]; other site 406425008984 putative dimer interface [polypeptide binding]; other site 406425008985 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 406425008986 dimer interface [polypeptide binding]; other site 406425008987 N-terminal domain interface [polypeptide binding]; other site 406425008988 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 406425008989 glycosyl transferase family protein; Provisional; Region: PRK08136 406425008990 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 406425008991 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 406425008992 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 406425008993 active site 406425008994 catalytic residues [active] 406425008995 metal binding site [ion binding]; metal-binding site 406425008996 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 406425008997 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 406425008998 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 406425008999 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425009000 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425009001 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425009002 DNA binding residues [nucleotide binding] 406425009003 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 406425009004 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 406425009005 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 406425009006 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 406425009007 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 406425009008 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 406425009009 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 406425009010 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 406425009011 active site 406425009012 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 406425009013 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 406425009014 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 406425009015 active site turn [active] 406425009016 phosphorylation site [posttranslational modification] 406425009017 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 406425009018 HPr interaction site; other site 406425009019 glycerol kinase (GK) interaction site [polypeptide binding]; other site 406425009020 active site 406425009021 phosphorylation site [posttranslational modification] 406425009022 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 406425009023 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 406425009024 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 406425009025 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 406425009026 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 406425009027 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 406425009028 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425009029 dimer interface [polypeptide binding]; other site 406425009030 active site 406425009031 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425009032 dimer interface [polypeptide binding]; other site 406425009033 active site 406425009034 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 406425009035 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 406425009036 active site 406425009037 dimer interface [polypeptide binding]; other site 406425009038 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 406425009039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425009040 DNA-binding site [nucleotide binding]; DNA binding site 406425009041 UTRA domain; Region: UTRA; pfam07702 406425009042 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 406425009043 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 406425009044 putative active site [active] 406425009045 putative PHP Thumb interface [polypeptide binding]; other site 406425009046 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 406425009047 generic binding surface II; other site 406425009048 generic binding surface I; other site 406425009049 DNA Polymerase Y-family; Region: PolY_like; cd03468 406425009050 active site 406425009051 DNA binding site [nucleotide binding] 406425009052 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 406425009053 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425009054 Walker A/P-loop; other site 406425009055 ATP binding site [chemical binding]; other site 406425009056 Q-loop/lid; other site 406425009057 ABC transporter signature motif; other site 406425009058 Walker B; other site 406425009059 D-loop; other site 406425009060 H-loop/switch region; other site 406425009061 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425009062 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 406425009063 TM-ABC transporter signature motif; other site 406425009064 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 406425009065 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425009066 zinc binding site [ion binding]; other site 406425009067 putative ligand binding site [chemical binding]; other site 406425009068 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 406425009069 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 406425009070 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 406425009071 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425009072 dimer interface [polypeptide binding]; other site 406425009073 putative CheW interface [polypeptide binding]; other site 406425009074 YCII-related domain; Region: YCII; cl00999 406425009075 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 406425009076 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 406425009077 Cu(I) binding site [ion binding]; other site 406425009078 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 406425009079 UbiA prenyltransferase family; Region: UbiA; pfam01040 406425009080 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 406425009081 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 406425009082 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 406425009083 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 406425009084 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 406425009085 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 406425009086 Subunit III/VIIa interface [polypeptide binding]; other site 406425009087 Phospholipid binding site [chemical binding]; other site 406425009088 Subunit I/III interface [polypeptide binding]; other site 406425009089 Subunit III/VIb interface [polypeptide binding]; other site 406425009090 Subunit III/VIa interface; other site 406425009091 Subunit III/Vb interface [polypeptide binding]; other site 406425009092 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 406425009093 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 406425009094 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 406425009095 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 406425009096 Subunit I/III interface [polypeptide binding]; other site 406425009097 D-pathway; other site 406425009098 Subunit I/VIIc interface [polypeptide binding]; other site 406425009099 Subunit I/IV interface [polypeptide binding]; other site 406425009100 Subunit I/II interface [polypeptide binding]; other site 406425009101 Low-spin heme (heme a) binding site [chemical binding]; other site 406425009102 Subunit I/VIIa interface [polypeptide binding]; other site 406425009103 Subunit I/VIa interface [polypeptide binding]; other site 406425009104 Dimer interface; other site 406425009105 Putative water exit pathway; other site 406425009106 Binuclear center (heme a3/CuB) [ion binding]; other site 406425009107 K-pathway; other site 406425009108 Subunit I/Vb interface [polypeptide binding]; other site 406425009109 Putative proton exit pathway; other site 406425009110 Subunit I/VIb interface; other site 406425009111 Subunit I/VIc interface [polypeptide binding]; other site 406425009112 Electron transfer pathway; other site 406425009113 Subunit I/VIIIb interface [polypeptide binding]; other site 406425009114 Subunit I/VIIb interface [polypeptide binding]; other site 406425009115 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 406425009116 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 406425009117 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 406425009118 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425009119 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 406425009120 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425009121 ligand binding site [chemical binding]; other site 406425009122 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 406425009123 Methyltransferase domain; Region: Methyltransf_23; pfam13489 406425009124 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425009125 S-adenosylmethionine binding site [chemical binding]; other site 406425009126 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 406425009127 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 406425009128 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 406425009129 putative ADP-ribose binding site [chemical binding]; other site 406425009130 putative active site [active] 406425009131 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 406425009132 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 406425009133 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 406425009134 preprotein translocase subunit SecB; Validated; Region: PRK05751 406425009135 SecA binding site; other site 406425009136 Preprotein binding site; other site 406425009137 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 406425009138 GSH binding site [chemical binding]; other site 406425009139 catalytic residues [active] 406425009140 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 406425009141 active site residue [active] 406425009142 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425009143 catalytic core [active] 406425009144 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425009145 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 406425009146 C-terminal peptidase (prc); Region: prc; TIGR00225 406425009147 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 406425009148 protein binding site [polypeptide binding]; other site 406425009149 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 406425009150 Catalytic dyad [active] 406425009151 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 406425009152 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 406425009153 ATP binding site [chemical binding]; other site 406425009154 substrate interface [chemical binding]; other site 406425009155 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 406425009156 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 406425009157 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 406425009158 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 406425009159 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 406425009160 dimerization domain swap beta strand [polypeptide binding]; other site 406425009161 regulatory protein interface [polypeptide binding]; other site 406425009162 active site 406425009163 regulatory phosphorylation site [posttranslational modification]; other site 406425009164 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 406425009165 active pocket/dimerization site; other site 406425009166 active site 406425009167 phosphorylation site [posttranslational modification] 406425009168 glutathione synthetase; Provisional; Region: PRK05246 406425009169 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 406425009170 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 406425009171 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 406425009172 Glutamate-cysteine ligase; Region: GshA; pfam08886 406425009173 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 406425009174 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 406425009175 Nitrogen regulatory protein P-II; Region: P-II; smart00938 406425009176 Membrane fusogenic activity; Region: BMFP; pfam04380 406425009177 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 406425009178 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 406425009179 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 406425009180 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 406425009181 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 406425009182 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425009183 catalytic residues [active] 406425009184 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425009185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009186 active site 406425009187 phosphorylation site [posttranslational modification] 406425009188 intermolecular recognition site; other site 406425009189 dimerization interface [polypeptide binding]; other site 406425009190 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425009191 Walker A motif; other site 406425009192 ATP binding site [chemical binding]; other site 406425009193 Walker B motif; other site 406425009194 arginine finger; other site 406425009195 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425009196 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 406425009197 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425009198 dimer interface [polypeptide binding]; other site 406425009199 phosphorylation site [posttranslational modification] 406425009200 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425009201 ATP binding site [chemical binding]; other site 406425009202 G-X-G motif; other site 406425009203 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 406425009204 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425009205 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 406425009206 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 406425009207 Na binding site [ion binding]; other site 406425009208 Protein of unknown function, DUF485; Region: DUF485; pfam04341 406425009209 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425009210 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425009211 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425009212 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425009213 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425009214 active site 406425009215 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425009216 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425009217 active site 406425009218 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425009219 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 406425009220 substrate binding site [chemical binding]; other site 406425009221 oxyanion hole (OAH) forming residues; other site 406425009222 trimer interface [polypeptide binding]; other site 406425009223 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 406425009224 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425009225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425009226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425009227 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425009228 putative effector binding pocket; other site 406425009229 dimerization interface [polypeptide binding]; other site 406425009230 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 406425009231 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425009232 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425009233 trimer interface [polypeptide binding]; other site 406425009234 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425009235 trimer interface [polypeptide binding]; other site 406425009236 Haemagglutinin; Region: HIM; pfam05662 406425009237 YadA-like C-terminal region; Region: YadA; pfam03895 406425009238 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425009239 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009240 dimer interface [polypeptide binding]; other site 406425009241 conserved gate region; other site 406425009242 putative PBP binding loops; other site 406425009243 ABC-ATPase subunit interface; other site 406425009244 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 406425009245 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425009246 Walker A/P-loop; other site 406425009247 ATP binding site [chemical binding]; other site 406425009248 Q-loop/lid; other site 406425009249 ABC transporter signature motif; other site 406425009250 Walker B; other site 406425009251 D-loop; other site 406425009252 H-loop/switch region; other site 406425009253 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 406425009254 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425009255 substrate binding pocket [chemical binding]; other site 406425009256 membrane-bound complex binding site; other site 406425009257 hinge residues; other site 406425009258 lipoyl synthase; Provisional; Region: PRK05481 406425009259 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425009260 FeS/SAM binding site; other site 406425009261 lipoate-protein ligase B; Provisional; Region: PRK14343 406425009262 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 406425009263 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425009264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425009265 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425009266 dimerization interface [polypeptide binding]; other site 406425009267 substrate binding pocket [chemical binding]; other site 406425009268 hypothetical protein; Provisional; Region: PRK02047 406425009269 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 406425009270 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 406425009271 homodimer interface [polypeptide binding]; other site 406425009272 substrate-cofactor binding pocket; other site 406425009273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425009274 catalytic residue [active] 406425009275 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 406425009276 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 406425009277 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 406425009278 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 406425009279 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 406425009280 dimer interface [polypeptide binding]; other site 406425009281 [2Fe-2S] cluster binding site [ion binding]; other site 406425009282 Predicted integral membrane protein [Function unknown]; Region: COG5652 406425009283 Protein of unknown function (DUF330); Region: DUF330; pfam03886 406425009284 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 406425009285 mce related protein; Region: MCE; pfam02470 406425009286 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 406425009287 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 406425009288 Walker A/P-loop; other site 406425009289 ATP binding site [chemical binding]; other site 406425009290 Q-loop/lid; other site 406425009291 ABC transporter signature motif; other site 406425009292 Walker B; other site 406425009293 D-loop; other site 406425009294 H-loop/switch region; other site 406425009295 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 406425009296 Permease; Region: Permease; pfam02405 406425009297 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 406425009298 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 406425009299 active site 406425009300 metal binding site [ion binding]; metal-binding site 406425009301 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 406425009302 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425009303 Sel1-like repeats; Region: SEL1; smart00671 406425009304 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425009305 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425009306 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425009307 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425009308 MULE transposase domain; Region: MULE; pfam10551 406425009309 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 406425009310 biotin--protein ligase; Provisional; Region: PRK06955 406425009311 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 406425009312 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 406425009313 pantothenate kinase; Reviewed; Region: PRK13328 406425009314 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 406425009315 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 406425009316 active site 406425009317 HIGH motif; other site 406425009318 nucleotide binding site [chemical binding]; other site 406425009319 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 406425009320 dinuclear metal binding motif [ion binding]; other site 406425009321 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 406425009322 active site 406425009323 nucleophile elbow; other site 406425009324 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425009325 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425009326 substrate binding site [chemical binding]; other site 406425009327 oxyanion hole (OAH) forming residues; other site 406425009328 trimer interface [polypeptide binding]; other site 406425009329 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 406425009330 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425009331 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425009332 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425009333 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 406425009334 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 406425009335 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 406425009336 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 406425009337 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 406425009338 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 406425009339 substrate binding pocket [chemical binding]; other site 406425009340 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 406425009341 B12 binding site [chemical binding]; other site 406425009342 cobalt ligand [ion binding]; other site 406425009343 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 406425009344 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 406425009345 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 406425009346 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 406425009347 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 406425009348 active site 406425009349 HIGH motif; other site 406425009350 KMSK motif region; other site 406425009351 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 406425009352 tRNA binding surface [nucleotide binding]; other site 406425009353 anticodon binding site; other site 406425009354 Sporulation related domain; Region: SPOR; pfam05036 406425009355 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 406425009356 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 406425009357 catalytic residues [active] 406425009358 hinge region; other site 406425009359 alpha helical domain; other site 406425009360 short chain dehydrogenase; Provisional; Region: PRK07024 406425009361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425009362 NAD(P) binding site [chemical binding]; other site 406425009363 active site 406425009364 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 406425009365 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 406425009366 peptide binding site [polypeptide binding]; other site 406425009367 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 406425009368 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425009369 Walker A/P-loop; other site 406425009370 ATP binding site [chemical binding]; other site 406425009371 Q-loop/lid; other site 406425009372 ABC transporter signature motif; other site 406425009373 Walker B; other site 406425009374 D-loop; other site 406425009375 H-loop/switch region; other site 406425009376 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 406425009377 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 406425009378 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 406425009379 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 406425009380 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 406425009381 active site clefts [active] 406425009382 zinc binding site [ion binding]; other site 406425009383 dimer interface [polypeptide binding]; other site 406425009384 C factor cell-cell signaling protein; Provisional; Region: PRK09009 406425009385 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 406425009386 NADP binding site [chemical binding]; other site 406425009387 homodimer interface [polypeptide binding]; other site 406425009388 active site 406425009389 hypothetical protein; Provisional; Region: PRK01842 406425009390 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 406425009391 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425009392 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 406425009393 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425009394 inhibitor-cofactor binding pocket; inhibition site 406425009395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425009396 catalytic residue [active] 406425009397 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 406425009398 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 406425009399 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425009400 catalytic residue [active] 406425009401 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 406425009402 AAA domain; Region: AAA_26; pfam13500 406425009403 biotin synthase; Provisional; Region: PRK15108 406425009404 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425009405 FeS/SAM binding site; other site 406425009406 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 406425009407 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425009408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425009409 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 406425009410 putative substrate binding pocket [chemical binding]; other site 406425009411 dimerization interface [polypeptide binding]; other site 406425009412 hypothetical protein; Provisional; Region: PRK12569 406425009413 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 406425009414 carboxyltransferase (CT) interaction site; other site 406425009415 biotinylation site [posttranslational modification]; other site 406425009416 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 406425009417 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425009418 ATP-grasp domain; Region: ATP-grasp_4; cl17255 406425009419 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 406425009420 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 406425009421 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 406425009422 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 406425009423 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425009424 CutC family; Region: CutC; cl01218 406425009425 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425009426 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 406425009427 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 406425009428 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 406425009429 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 406425009430 dimer interface [polypeptide binding]; other site 406425009431 PYR/PP interface [polypeptide binding]; other site 406425009432 TPP binding site [chemical binding]; other site 406425009433 substrate binding site [chemical binding]; other site 406425009434 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 406425009435 TPP-binding site; other site 406425009436 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 406425009437 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 406425009438 active site 406425009439 substrate binding site [chemical binding]; other site 406425009440 trimer interface [polypeptide binding]; other site 406425009441 CoA binding site [chemical binding]; other site 406425009442 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425009443 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 406425009444 putative C-terminal domain interface [polypeptide binding]; other site 406425009445 putative GSH binding site (G-site) [chemical binding]; other site 406425009446 putative dimer interface [polypeptide binding]; other site 406425009447 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 406425009448 dimer interface [polypeptide binding]; other site 406425009449 N-terminal domain interface [polypeptide binding]; other site 406425009450 putative substrate binding pocket (H-site) [chemical binding]; other site 406425009451 Inward rectifier potassium channel; Region: IRK; pfam01007 406425009452 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 406425009453 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 406425009454 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425009455 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 406425009456 dimer interface [polypeptide binding]; other site 406425009457 active site 406425009458 catalytic residue [active] 406425009459 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 406425009460 putative active site [active] 406425009461 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 406425009462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425009463 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425009464 dimerization interface [polypeptide binding]; other site 406425009465 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425009466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425009467 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 406425009468 C-terminal domain interface [polypeptide binding]; other site 406425009469 GSH binding site (G-site) [chemical binding]; other site 406425009470 dimer interface [polypeptide binding]; other site 406425009471 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 406425009472 dimer interface [polypeptide binding]; other site 406425009473 substrate binding pocket (H-site) [chemical binding]; other site 406425009474 N-terminal domain interface [polypeptide binding]; other site 406425009475 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425009476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425009477 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425009478 dimerization interface [polypeptide binding]; other site 406425009479 substrate binding pocket [chemical binding]; other site 406425009480 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425009481 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 406425009482 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425009483 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 406425009484 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 406425009485 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 406425009486 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425009487 catalytic loop [active] 406425009488 iron binding site [ion binding]; other site 406425009489 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425009490 Serine hydrolase; Region: Ser_hydrolase; pfam06821 406425009491 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425009492 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 406425009493 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 406425009494 putative ligand binding site [chemical binding]; other site 406425009495 NAD binding site [chemical binding]; other site 406425009496 dimerization interface [polypeptide binding]; other site 406425009497 catalytic site [active] 406425009498 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 406425009499 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 406425009500 active site 406425009501 catalytic residues [active] 406425009502 metal binding site [ion binding]; metal-binding site 406425009503 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 406425009504 putative deacylase active site [active] 406425009505 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 406425009506 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425009507 EamA-like transporter family; Region: EamA; pfam00892 406425009508 EamA-like transporter family; Region: EamA; pfam00892 406425009509 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425009510 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425009511 dimerization interface [polypeptide binding]; other site 406425009512 putative DNA binding site [nucleotide binding]; other site 406425009513 putative Zn2+ binding site [ion binding]; other site 406425009514 AsnC family; Region: AsnC_trans_reg; pfam01037 406425009515 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 406425009516 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 406425009517 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425009518 FMN binding site [chemical binding]; other site 406425009519 substrate binding site [chemical binding]; other site 406425009520 putative catalytic residue [active] 406425009521 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425009522 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425009523 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425009524 putative effector binding pocket; other site 406425009525 dimerization interface [polypeptide binding]; other site 406425009526 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425009527 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425009528 eyelet of channel; other site 406425009529 trimer interface [polypeptide binding]; other site 406425009530 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 406425009531 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 406425009532 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425009533 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 406425009534 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425009535 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425009536 metal binding site [ion binding]; metal-binding site 406425009537 active site 406425009538 I-site; other site 406425009539 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425009540 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425009541 DNA binding site [nucleotide binding] 406425009542 domain linker motif; other site 406425009543 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 406425009544 ligand binding site [chemical binding]; other site 406425009545 dimerization interface [polypeptide binding]; other site 406425009546 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 406425009547 dimerization interface [polypeptide binding]; other site 406425009548 putative active cleft [active] 406425009549 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 406425009550 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425009551 putative substrate binding site [chemical binding]; other site 406425009552 putative ATP binding site [chemical binding]; other site 406425009553 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 406425009554 Uncharacterized conserved protein [Function unknown]; Region: COG1565 406425009555 short chain dehydrogenase; Provisional; Region: PRK09134 406425009556 Dihydroneopterin aldolase; Region: FolB; smart00905 406425009557 active site 406425009558 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 406425009559 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 406425009560 Ligand Binding Site [chemical binding]; other site 406425009561 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 406425009562 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 406425009563 Substrate binding site; other site 406425009564 Mg++ binding site; other site 406425009565 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 406425009566 active site 406425009567 substrate binding site [chemical binding]; other site 406425009568 CoA binding site [chemical binding]; other site 406425009569 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 406425009570 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 406425009571 glutaminase active site [active] 406425009572 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425009573 dimer interface [polypeptide binding]; other site 406425009574 active site 406425009575 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425009576 dimer interface [polypeptide binding]; other site 406425009577 active site 406425009578 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 406425009579 Predicted transcriptional regulator [Transcription]; Region: COG2944 406425009580 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425009581 non-specific DNA binding site [nucleotide binding]; other site 406425009582 salt bridge; other site 406425009583 sequence-specific DNA binding site [nucleotide binding]; other site 406425009584 Iron permease FTR1 family; Region: FTR1; cl00475 406425009585 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 406425009586 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 406425009587 metal-binding site [ion binding] 406425009588 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 406425009589 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 406425009590 NAD(P) binding site [chemical binding]; other site 406425009591 catalytic residues [active] 406425009592 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425009593 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 406425009594 non-specific DNA binding site [nucleotide binding]; other site 406425009595 salt bridge; other site 406425009596 sequence-specific DNA binding site [nucleotide binding]; other site 406425009597 Cupin domain; Region: Cupin_2; pfam07883 406425009598 Peptidase C26; Region: Peptidase_C26; pfam07722 406425009599 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 406425009600 catalytic triad [active] 406425009601 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 406425009602 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425009603 putative aminotransferase; Validated; Region: PRK07480 406425009604 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425009605 inhibitor-cofactor binding pocket; inhibition site 406425009606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425009607 catalytic residue [active] 406425009608 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 406425009609 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 406425009610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425009611 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 406425009612 Walker A/P-loop; other site 406425009613 ATP binding site [chemical binding]; other site 406425009614 Q-loop/lid; other site 406425009615 ABC transporter signature motif; other site 406425009616 Walker B; other site 406425009617 D-loop; other site 406425009618 H-loop/switch region; other site 406425009619 TOBE domain; Region: TOBE_2; pfam08402 406425009620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009621 dimer interface [polypeptide binding]; other site 406425009622 conserved gate region; other site 406425009623 putative PBP binding loops; other site 406425009624 ABC-ATPase subunit interface; other site 406425009625 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425009626 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009627 dimer interface [polypeptide binding]; other site 406425009628 conserved gate region; other site 406425009629 putative PBP binding loops; other site 406425009630 ABC-ATPase subunit interface; other site 406425009631 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 406425009632 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 406425009633 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425009634 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425009635 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425009636 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425009637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 406425009638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 406425009639 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 406425009640 glutathione reductase; Validated; Region: PRK06116 406425009641 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425009642 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425009643 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425009644 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425009645 eyelet of channel; other site 406425009646 trimer interface [polypeptide binding]; other site 406425009647 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 406425009648 Chromate transporter; Region: Chromate_transp; pfam02417 406425009649 Chromate transporter; Region: Chromate_transp; pfam02417 406425009650 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425009651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425009652 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425009653 dimerization interface [polypeptide binding]; other site 406425009654 substrate binding pocket [chemical binding]; other site 406425009655 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 406425009656 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 406425009657 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 406425009658 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 406425009659 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 406425009660 Flagellar regulator YcgR; Region: YcgR; pfam07317 406425009661 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 406425009662 PilZ domain; Region: PilZ; pfam07238 406425009663 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 406425009664 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 406425009665 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 406425009666 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 406425009667 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 406425009668 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 406425009669 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 406425009670 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 406425009671 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 406425009672 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 406425009673 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 406425009674 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 406425009675 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 406425009676 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 406425009677 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 406425009678 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 406425009679 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 406425009680 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 406425009681 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 406425009682 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 406425009683 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 406425009684 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 406425009685 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 406425009686 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 406425009687 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 406425009688 SAF-like; Region: SAF_2; pfam13144 406425009689 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 406425009690 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 406425009691 FlgN protein; Region: FlgN; pfam05130 406425009692 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 406425009693 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 406425009694 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 406425009695 active site 406425009696 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425009697 sequence-specific DNA binding site [nucleotide binding]; other site 406425009698 salt bridge; other site 406425009699 Cupin domain; Region: Cupin_2; pfam07883 406425009700 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 406425009701 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 406425009702 active site 406425009703 NTP binding site [chemical binding]; other site 406425009704 metal binding triad [ion binding]; metal-binding site 406425009705 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 406425009706 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425009707 Zn2+ binding site [ion binding]; other site 406425009708 Mg2+ binding site [ion binding]; other site 406425009709 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425009710 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 406425009711 putative C-terminal domain interface [polypeptide binding]; other site 406425009712 putative GSH binding site (G-site) [chemical binding]; other site 406425009713 putative dimer interface [polypeptide binding]; other site 406425009714 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 406425009715 putative N-terminal domain interface [polypeptide binding]; other site 406425009716 putative dimer interface [polypeptide binding]; other site 406425009717 putative substrate binding pocket (H-site) [chemical binding]; other site 406425009718 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 406425009719 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 406425009720 putative NAD(P) binding site [chemical binding]; other site 406425009721 active site 406425009722 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 406425009723 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425009724 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425009725 catalytic residue [active] 406425009726 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 406425009727 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 406425009728 MarR family; Region: MarR_2; cl17246 406425009729 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425009730 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 406425009731 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 406425009732 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 406425009733 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 406425009734 putative active site [active] 406425009735 TraB family; Region: TraB; pfam01963 406425009736 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 406425009737 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425009738 Walker A/P-loop; other site 406425009739 ATP binding site [chemical binding]; other site 406425009740 Q-loop/lid; other site 406425009741 ABC transporter signature motif; other site 406425009742 Walker B; other site 406425009743 D-loop; other site 406425009744 H-loop/switch region; other site 406425009745 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 406425009746 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 406425009747 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425009748 Walker A/P-loop; other site 406425009749 ATP binding site [chemical binding]; other site 406425009750 Q-loop/lid; other site 406425009751 ABC transporter signature motif; other site 406425009752 Walker B; other site 406425009753 D-loop; other site 406425009754 H-loop/switch region; other site 406425009755 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425009756 dipeptide transporter; Provisional; Region: PRK10913 406425009757 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009758 dimer interface [polypeptide binding]; other site 406425009759 conserved gate region; other site 406425009760 putative PBP binding loops; other site 406425009761 ABC-ATPase subunit interface; other site 406425009762 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 406425009763 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009764 dimer interface [polypeptide binding]; other site 406425009765 conserved gate region; other site 406425009766 putative PBP binding loops; other site 406425009767 ABC-ATPase subunit interface; other site 406425009768 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 406425009769 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 406425009770 peptide binding site [polypeptide binding]; other site 406425009771 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425009772 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425009773 putative substrate translocation pore; other site 406425009774 High potential iron-sulfur protein; Region: HIPIP; pfam01355 406425009775 Predicted dehydrogenase [General function prediction only]; Region: COG0579 406425009776 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425009777 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425009778 ATP binding site [chemical binding]; other site 406425009779 Walker B motif; other site 406425009780 arginine finger; other site 406425009781 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 406425009782 putative FMN binding site [chemical binding]; other site 406425009783 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 406425009784 putative catalytic site [active] 406425009785 putative phosphate binding site [ion binding]; other site 406425009786 putative metal binding site [ion binding]; other site 406425009787 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 406425009788 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 406425009789 FAD binding pocket [chemical binding]; other site 406425009790 FAD binding motif [chemical binding]; other site 406425009791 phosphate binding motif [ion binding]; other site 406425009792 beta-alpha-beta structure motif; other site 406425009793 NAD binding pocket [chemical binding]; other site 406425009794 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 406425009795 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425009796 ATP binding site [chemical binding]; other site 406425009797 Mg2+ binding site [ion binding]; other site 406425009798 G-X-G motif; other site 406425009799 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425009800 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009801 active site 406425009802 phosphorylation site [posttranslational modification] 406425009803 intermolecular recognition site; other site 406425009804 dimerization interface [polypeptide binding]; other site 406425009805 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425009806 DNA binding residues [nucleotide binding] 406425009807 dimerization interface [polypeptide binding]; other site 406425009808 amino acid transporter; Region: 2A0306; TIGR00909 406425009809 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 406425009810 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 406425009811 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 406425009812 XdhC Rossmann domain; Region: XdhC_C; pfam13478 406425009813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 406425009814 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 406425009815 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 406425009816 Flagellar protein FliT; Region: FliT; cl05125 406425009817 Flagellar protein FliS; Region: FliS; cl00654 406425009818 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 406425009819 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 406425009820 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 406425009821 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 406425009822 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 406425009823 FliG C-terminal domain; Region: FliG_C; pfam01706 406425009824 flagellar assembly protein H; Validated; Region: fliH; PRK05687 406425009825 Flagellar assembly protein FliH; Region: FliH; pfam02108 406425009826 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 406425009827 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 406425009828 Walker A motif/ATP binding site; other site 406425009829 Walker B motif; other site 406425009830 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 406425009831 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 406425009832 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 406425009833 choline dehydrogenase; Validated; Region: PRK02106 406425009834 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425009835 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 406425009836 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 406425009837 NAD(P) binding site [chemical binding]; other site 406425009838 catalytic residues [active] 406425009839 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 406425009840 serine/threonine protein kinase; Provisional; Region: PRK11768 406425009841 EamA-like transporter family; Region: EamA; pfam00892 406425009842 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425009843 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425009844 active site 406425009845 catalytic tetrad [active] 406425009846 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 406425009847 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 406425009848 S-adenosylmethionine synthetase; Validated; Region: PRK05250 406425009849 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 406425009850 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 406425009851 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 406425009852 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 406425009853 putative acyl-acceptor binding pocket; other site 406425009854 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 406425009855 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425009856 sequence-specific DNA binding site [nucleotide binding]; other site 406425009857 salt bridge; other site 406425009858 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 406425009859 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 406425009860 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 406425009861 Protein of unknown function, DUF484; Region: DUF484; cl17449 406425009862 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 406425009863 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425009864 active site 406425009865 DNA binding site [nucleotide binding] 406425009866 Int/Topo IB signature motif; other site 406425009867 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 406425009868 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 406425009869 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 406425009870 putative RNA binding site [nucleotide binding]; other site 406425009871 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425009872 S-adenosylmethionine binding site [chemical binding]; other site 406425009873 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 406425009874 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 406425009875 P-loop, Walker A motif; other site 406425009876 Base recognition motif; other site 406425009877 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 406425009878 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 406425009879 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 406425009880 active site 406425009881 HslU subunit interaction site [polypeptide binding]; other site 406425009882 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 406425009883 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425009884 Walker A motif; other site 406425009885 ATP binding site [chemical binding]; other site 406425009886 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 406425009887 Walker B motif; other site 406425009888 arginine finger; other site 406425009889 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 406425009890 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 406425009891 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009892 active site 406425009893 phosphorylation site [posttranslational modification] 406425009894 intermolecular recognition site; other site 406425009895 dimerization interface [polypeptide binding]; other site 406425009896 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425009897 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425009898 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425009899 dimer interface [polypeptide binding]; other site 406425009900 phosphorylation site [posttranslational modification] 406425009901 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425009902 ATP binding site [chemical binding]; other site 406425009903 Mg2+ binding site [ion binding]; other site 406425009904 G-X-G motif; other site 406425009905 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 406425009906 feedback inhibition sensing region; other site 406425009907 homohexameric interface [polypeptide binding]; other site 406425009908 nucleotide binding site [chemical binding]; other site 406425009909 N-acetyl-L-glutamate binding site [chemical binding]; other site 406425009910 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 406425009911 division inhibitor protein; Provisional; Region: slmA; PRK09480 406425009912 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425009913 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 406425009914 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 406425009915 Methyltransferase domain; Region: Methyltransf_31; pfam13847 406425009916 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425009917 S-adenosylmethionine binding site [chemical binding]; other site 406425009918 muropeptide transporter; Reviewed; Region: ampG; PRK11902 406425009919 AmpG-like permease; Region: 2A0125; TIGR00901 406425009920 Peptidase family M48; Region: Peptidase_M48; cl12018 406425009921 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425009922 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425009923 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 406425009924 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 406425009925 putative NAD(P) binding site [chemical binding]; other site 406425009926 putative substrate binding site [chemical binding]; other site 406425009927 catalytic Zn binding site [ion binding]; other site 406425009928 structural Zn binding site [ion binding]; other site 406425009929 dimer interface [polypeptide binding]; other site 406425009930 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 406425009931 putative active site [active] 406425009932 putative catalytic site [active] 406425009933 putative DNA binding site [nucleotide binding]; other site 406425009934 putative phosphate binding site [ion binding]; other site 406425009935 metal binding site A [ion binding]; metal-binding site 406425009936 putative AP binding site [nucleotide binding]; other site 406425009937 putative metal binding site B [ion binding]; other site 406425009938 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 406425009939 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 406425009940 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 406425009941 GatB domain; Region: GatB_Yqey; smart00845 406425009942 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 406425009943 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 406425009944 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 406425009945 rod shape-determining protein MreB; Provisional; Region: PRK13927 406425009946 MreB and similar proteins; Region: MreB_like; cd10225 406425009947 nucleotide binding site [chemical binding]; other site 406425009948 Mg binding site [ion binding]; other site 406425009949 putative protofilament interaction site [polypeptide binding]; other site 406425009950 RodZ interaction site [polypeptide binding]; other site 406425009951 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 406425009952 rod shape-determining protein MreC; Region: MreC; pfam04085 406425009953 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 406425009954 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 406425009955 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 406425009956 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 406425009957 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 406425009958 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425009959 Sel1-like repeats; Region: SEL1; smart00671 406425009960 Sel1-like repeats; Region: SEL1; smart00671 406425009961 Sel1-like repeats; Region: SEL1; smart00671 406425009962 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 406425009963 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 406425009964 active site 406425009965 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 406425009966 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 406425009967 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 406425009968 Ligand Binding Site [chemical binding]; other site 406425009969 Response regulator receiver domain; Region: Response_reg; pfam00072 406425009970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009971 active site 406425009972 phosphorylation site [posttranslational modification] 406425009973 intermolecular recognition site; other site 406425009974 dimerization interface [polypeptide binding]; other site 406425009975 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 406425009976 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425009977 dimerization interface [polypeptide binding]; other site 406425009978 PAS domain; Region: PAS; smart00091 406425009979 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 406425009980 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425009981 dimer interface [polypeptide binding]; other site 406425009982 phosphorylation site [posttranslational modification] 406425009983 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425009984 ATP binding site [chemical binding]; other site 406425009985 Mg2+ binding site [ion binding]; other site 406425009986 G-X-G motif; other site 406425009987 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 406425009988 16S rRNA methyltransferase B; Provisional; Region: PRK10901 406425009989 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 406425009990 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425009991 S-adenosylmethionine binding site [chemical binding]; other site 406425009992 M48 family peptidase; Provisional; Region: PRK03001 406425009993 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425009994 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 406425009995 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 406425009996 putative active site [active] 406425009997 substrate binding site [chemical binding]; other site 406425009998 putative cosubstrate binding site; other site 406425009999 catalytic site [active] 406425010000 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 406425010001 substrate binding site [chemical binding]; other site 406425010002 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 406425010003 active site 406425010004 catalytic residues [active] 406425010005 metal binding site [ion binding]; metal-binding site 406425010006 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 406425010007 DNA protecting protein DprA; Region: dprA; TIGR00732 406425010008 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425010009 catalytic residues [active] 406425010010 DNA topoisomerase III; Validated; Region: PRK08173 406425010011 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 406425010012 active site 406425010013 putative interdomain interaction site [polypeptide binding]; other site 406425010014 putative metal-binding site [ion binding]; other site 406425010015 putative nucleotide binding site [chemical binding]; other site 406425010016 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 406425010017 domain I; other site 406425010018 DNA binding groove [nucleotide binding] 406425010019 phosphate binding site [ion binding]; other site 406425010020 domain II; other site 406425010021 domain III; other site 406425010022 nucleotide binding site [chemical binding]; other site 406425010023 catalytic site [active] 406425010024 domain IV; other site 406425010025 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 406425010026 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 406425010027 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010028 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425010029 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425010030 putative effector binding pocket; other site 406425010031 dimerization interface [polypeptide binding]; other site 406425010032 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 406425010033 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 406425010034 dimerization interface [polypeptide binding]; other site 406425010035 NAD binding site [chemical binding]; other site 406425010036 ligand binding site [chemical binding]; other site 406425010037 catalytic site [active] 406425010038 Patatin-like phospholipase; Region: Patatin; pfam01734 406425010039 active site 406425010040 nucleophile elbow; other site 406425010041 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 406425010042 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425010043 CoenzymeA binding site [chemical binding]; other site 406425010044 subunit interaction site [polypeptide binding]; other site 406425010045 PHB binding site; other site 406425010046 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 406425010047 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 406425010048 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 406425010049 CGNR zinc finger; Region: zf-CGNR; pfam11706 406425010050 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425010051 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425010052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425010053 Walker A/P-loop; other site 406425010054 ATP binding site [chemical binding]; other site 406425010055 Q-loop/lid; other site 406425010056 ABC transporter signature motif; other site 406425010057 Walker B; other site 406425010058 D-loop; other site 406425010059 H-loop/switch region; other site 406425010060 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425010061 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010062 dimer interface [polypeptide binding]; other site 406425010063 conserved gate region; other site 406425010064 putative PBP binding loops; other site 406425010065 ABC-ATPase subunit interface; other site 406425010066 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425010067 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010068 substrate binding pocket [chemical binding]; other site 406425010069 membrane-bound complex binding site; other site 406425010070 hinge residues; other site 406425010071 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 406425010072 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 406425010073 NAD(P) binding site [chemical binding]; other site 406425010074 catalytic residues [active] 406425010075 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 406425010076 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 406425010077 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 406425010078 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 406425010079 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 406425010080 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010081 dimer interface [polypeptide binding]; other site 406425010082 conserved gate region; other site 406425010083 putative PBP binding loops; other site 406425010084 ABC-ATPase subunit interface; other site 406425010085 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010086 dimer interface [polypeptide binding]; other site 406425010087 conserved gate region; other site 406425010088 putative PBP binding loops; other site 406425010089 ABC-ATPase subunit interface; other site 406425010090 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 406425010091 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425010092 catalytic residue [active] 406425010093 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425010094 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425010095 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 406425010096 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425010097 DNA-binding site [nucleotide binding]; DNA binding site 406425010098 FCD domain; Region: FCD; pfam07729 406425010099 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425010100 Phosphoesterase family; Region: Phosphoesterase; pfam04185 406425010101 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425010102 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425010103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425010104 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 406425010105 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425010106 dimerization interface [polypeptide binding]; other site 406425010107 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 406425010108 L-lactate permease; Region: Lactate_perm; cl00701 406425010109 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425010110 glutamate--cysteine ligase; Provisional; Region: PRK02107 406425010111 AlkA N-terminal domain; Region: AlkA_N; pfam06029 406425010112 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 406425010113 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 406425010114 minor groove reading motif; other site 406425010115 helix-hairpin-helix signature motif; other site 406425010116 substrate binding pocket [chemical binding]; other site 406425010117 active site 406425010118 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 406425010119 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 406425010120 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010121 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 406425010122 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 406425010123 DNA binding site [nucleotide binding] 406425010124 active site 406425010125 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 406425010126 dimer interface [polypeptide binding]; other site 406425010127 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425010128 metal binding site [ion binding]; metal-binding site 406425010129 YaeQ protein; Region: YaeQ; pfam07152 406425010130 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 406425010131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425010132 Coenzyme A binding pocket [chemical binding]; other site 406425010133 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 406425010134 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425010135 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425010136 metal binding site [ion binding]; metal-binding site 406425010137 active site 406425010138 I-site; other site 406425010139 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 406425010140 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 406425010141 trmE is a tRNA modification GTPase; Region: trmE; cd04164 406425010142 G1 box; other site 406425010143 GTP/Mg2+ binding site [chemical binding]; other site 406425010144 Switch I region; other site 406425010145 G2 box; other site 406425010146 Switch II region; other site 406425010147 G3 box; other site 406425010148 G4 box; other site 406425010149 G5 box; other site 406425010150 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 406425010151 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425010152 non-specific DNA binding site [nucleotide binding]; other site 406425010153 salt bridge; other site 406425010154 sequence-specific DNA binding site [nucleotide binding]; other site 406425010155 membrane protein insertase; Provisional; Region: PRK01318 406425010156 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 406425010157 hypothetical protein; Validated; Region: PRK00041 406425010158 Ribonuclease P; Region: Ribonuclease_P; cl00457 406425010159 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 406425010160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425010162 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 406425010163 Protein of unknown function, DUF608; Region: DUF608; pfam04685 406425010164 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425010165 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425010166 DNA-binding site [nucleotide binding]; DNA binding site 406425010167 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425010168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425010169 homodimer interface [polypeptide binding]; other site 406425010170 catalytic residue [active] 406425010171 formate dehydrogenase; Provisional; Region: PRK07574 406425010172 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 406425010173 dimerization interface [polypeptide binding]; other site 406425010174 ligand binding site [chemical binding]; other site 406425010175 NAD binding site [chemical binding]; other site 406425010176 catalytic site [active] 406425010177 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 406425010178 [2Fe-2S] cluster binding site [ion binding]; other site 406425010179 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 406425010180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425010181 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425010182 MarC family integral membrane protein; Region: MarC; cl00919 406425010183 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 406425010184 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 406425010185 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425010186 NAD binding site [chemical binding]; other site 406425010187 catalytic Zn binding site [ion binding]; other site 406425010188 structural Zn binding site [ion binding]; other site 406425010189 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 406425010190 dimerization interface [polypeptide binding]; other site 406425010191 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425010192 putative active site [active] 406425010193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425010194 heme pocket [chemical binding]; other site 406425010195 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425010196 dimer interface [polypeptide binding]; other site 406425010197 phosphorylation site [posttranslational modification] 406425010198 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425010199 ATP binding site [chemical binding]; other site 406425010200 Mg2+ binding site [ion binding]; other site 406425010201 G-X-G motif; other site 406425010202 Response regulator receiver domain; Region: Response_reg; pfam00072 406425010203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425010204 active site 406425010205 phosphorylation site [posttranslational modification] 406425010206 intermolecular recognition site; other site 406425010207 dimerization interface [polypeptide binding]; other site 406425010208 BON domain; Region: BON; pfam04972 406425010209 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 406425010210 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 406425010211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425010212 Walker A/P-loop; other site 406425010213 ATP binding site [chemical binding]; other site 406425010214 Q-loop/lid; other site 406425010215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425010216 ABC transporter signature motif; other site 406425010217 Walker B; other site 406425010218 D-loop; other site 406425010219 H-loop/switch region; other site 406425010220 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 406425010221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425010222 active site 406425010223 phosphorylation site [posttranslational modification] 406425010224 intermolecular recognition site; other site 406425010225 dimerization interface [polypeptide binding]; other site 406425010226 short chain dehydrogenase; Provisional; Region: PRK07326 406425010227 classical (c) SDRs; Region: SDR_c; cd05233 406425010228 NAD(P) binding site [chemical binding]; other site 406425010229 active site 406425010230 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 406425010231 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425010232 active site 406425010233 motif I; other site 406425010234 motif II; other site 406425010235 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425010236 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425010237 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425010238 putative active site [active] 406425010239 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 406425010240 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 406425010241 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425010242 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 406425010243 active site 406425010244 Probable transposase; Region: OrfB_IS605; pfam01385 406425010245 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 406425010246 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 406425010247 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425010248 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425010249 putative active site [active] 406425010250 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425010251 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425010252 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425010253 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 406425010254 Walker A motif; other site 406425010255 ATP binding site [chemical binding]; other site 406425010256 Walker B motif; other site 406425010257 arginine finger; other site 406425010258 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 406425010259 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425010260 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425010261 active site 406425010262 phosphorylation site [posttranslational modification] 406425010263 intermolecular recognition site; other site 406425010264 dimerization interface [polypeptide binding]; other site 406425010265 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425010266 Walker A motif; other site 406425010267 ATP binding site [chemical binding]; other site 406425010268 Walker B motif; other site 406425010269 arginine finger; other site 406425010270 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425010271 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425010272 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425010273 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 406425010274 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425010275 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 406425010276 putative active site [active] 406425010277 heme pocket [chemical binding]; other site 406425010278 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425010279 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425010280 putative active site [active] 406425010281 heme pocket [chemical binding]; other site 406425010282 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425010283 dimer interface [polypeptide binding]; other site 406425010284 phosphorylation site [posttranslational modification] 406425010285 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425010286 ATP binding site [chemical binding]; other site 406425010287 Mg2+ binding site [ion binding]; other site 406425010288 G-X-G motif; other site 406425010289 Response regulator receiver domain; Region: Response_reg; pfam00072 406425010290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425010291 active site 406425010292 phosphorylation site [posttranslational modification] 406425010293 intermolecular recognition site; other site 406425010294 dimerization interface [polypeptide binding]; other site 406425010295 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425010296 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 406425010297 NAD binding site [chemical binding]; other site 406425010298 putative substrate binding site 2 [chemical binding]; other site 406425010299 putative substrate binding site 1 [chemical binding]; other site 406425010300 active site 406425010301 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 406425010302 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 406425010303 putative ADP-binding pocket [chemical binding]; other site 406425010304 BON domain; Region: BON; pfam04972 406425010305 short chain dehydrogenase; Provisional; Region: PRK07109 406425010306 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 406425010307 putative NAD(P) binding site [chemical binding]; other site 406425010308 active site 406425010309 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 406425010310 short chain dehydrogenase; Provisional; Region: PRK06701 406425010311 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 406425010312 NAD binding site [chemical binding]; other site 406425010313 metal binding site [ion binding]; metal-binding site 406425010314 active site 406425010315 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 406425010316 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 406425010317 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425010318 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 406425010319 Fe-S cluster binding site [ion binding]; other site 406425010320 active site 406425010321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425010322 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 406425010323 active site 406425010324 phosphorylation site [posttranslational modification] 406425010325 intermolecular recognition site; other site 406425010326 dimerization interface [polypeptide binding]; other site 406425010327 PRC-barrel domain; Region: PRC; pfam05239 406425010328 FOG: CBS domain [General function prediction only]; Region: COG0517 406425010329 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 406425010330 Domain of unknown function (DUF892); Region: DUF892; pfam05974 406425010331 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 406425010332 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 406425010333 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 406425010334 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 406425010335 hydroperoxidase II; Provisional; Region: katE; PRK11249 406425010336 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 406425010337 heme binding pocket [chemical binding]; other site 406425010338 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 406425010339 domain interactions; other site 406425010340 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 406425010341 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 406425010342 putative DNA binding site [nucleotide binding]; other site 406425010343 putative homodimer interface [polypeptide binding]; other site 406425010344 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 406425010345 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 406425010346 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 406425010347 active site 406425010348 DNA binding site [nucleotide binding] 406425010349 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 406425010350 DNA binding site [nucleotide binding] 406425010351 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 406425010352 nucleotide binding site [chemical binding]; other site 406425010353 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 406425010354 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 406425010355 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 406425010356 intracellular protease, PfpI family; Region: PfpI; TIGR01382 406425010357 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 406425010358 proposed catalytic triad [active] 406425010359 conserved cys residue [active] 406425010360 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 406425010361 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 406425010362 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 406425010363 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 406425010364 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 406425010365 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 406425010366 active site 406425010367 catalytic site [active] 406425010368 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 406425010369 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 406425010370 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 406425010371 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 406425010372 active site 406425010373 catalytic site [active] 406425010374 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 406425010375 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 406425010376 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 406425010377 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 406425010378 active site 406425010379 catalytic site [active] 406425010380 glycogen branching enzyme; Provisional; Region: PRK05402 406425010381 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 406425010382 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 406425010383 active site 406425010384 catalytic site [active] 406425010385 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 406425010386 trehalose synthase; Region: treS_nterm; TIGR02456 406425010387 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 406425010388 active site 406425010389 catalytic site [active] 406425010390 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 406425010391 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 406425010392 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 406425010393 active site 406425010394 catalytic site [active] 406425010395 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 406425010396 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 406425010397 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 406425010398 active site 406425010399 homodimer interface [polypeptide binding]; other site 406425010400 catalytic site [active] 406425010401 acceptor binding site [chemical binding]; other site 406425010402 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 406425010403 putative catalytic site [active] 406425010404 putative metal binding site [ion binding]; other site 406425010405 putative phosphate binding site [ion binding]; other site 406425010406 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 406425010407 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 406425010408 putative active site [active] 406425010409 catalytic site [active] 406425010410 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 406425010411 putative active site [active] 406425010412 catalytic site [active] 406425010413 Uncharacterized conserved protein [Function unknown]; Region: COG0398 406425010414 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 406425010415 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 406425010416 MgtC family; Region: MgtC; pfam02308 406425010417 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 406425010418 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 406425010419 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425010420 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425010421 [2Fe-2S] cluster binding site [ion binding]; other site 406425010422 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 406425010423 iron-sulfur cluster [ion binding]; other site 406425010424 [2Fe-2S] cluster binding site [ion binding]; other site 406425010425 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 406425010426 substrate binding pocket [chemical binding]; other site 406425010427 substrate-Mg2+ binding site; other site 406425010428 aspartate-rich region 1; other site 406425010429 aspartate-rich region 2; other site 406425010430 Methyltransferase domain; Region: Methyltransf_31; pfam13847 406425010431 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425010432 S-adenosylmethionine binding site [chemical binding]; other site 406425010433 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 406425010434 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425010435 motif II; other site 406425010436 putative arabinose transporter; Provisional; Region: PRK03545 406425010437 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010438 putative substrate translocation pore; other site 406425010439 short chain dehydrogenase; Provisional; Region: PRK06172 406425010440 classical (c) SDRs; Region: SDR_c; cd05233 406425010441 NAD(P) binding site [chemical binding]; other site 406425010442 active site 406425010443 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425010445 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425010446 putative effector binding pocket; other site 406425010447 dimerization interface [polypeptide binding]; other site 406425010448 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 406425010449 FecR protein; Region: FecR; pfam04773 406425010450 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425010451 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425010452 dimerization interface [polypeptide binding]; other site 406425010453 putative DNA binding site [nucleotide binding]; other site 406425010454 putative Zn2+ binding site [ion binding]; other site 406425010455 AsnC family; Region: AsnC_trans_reg; pfam01037 406425010456 Secretin and TonB N terminus short domain; Region: STN; smart00965 406425010457 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425010458 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425010459 N-terminal plug; other site 406425010460 ligand-binding site [chemical binding]; other site 406425010461 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 406425010462 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 406425010463 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 406425010464 TolR protein; Region: tolR; TIGR02801 406425010465 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 406425010466 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 406425010467 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 406425010468 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425010469 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425010470 catalytic residues [active] 406425010471 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 406425010472 protease TldD; Provisional; Region: tldD; PRK10735 406425010473 RNA polymerase sigma factor; Provisional; Region: PRK12528 406425010474 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425010475 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425010476 DNA binding residues [nucleotide binding] 406425010477 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 406425010478 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425010479 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 406425010480 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 406425010481 catalytic Zn binding site [ion binding]; other site 406425010482 NAD binding site [chemical binding]; other site 406425010483 structural Zn binding site [ion binding]; other site 406425010484 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425010485 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 406425010486 NAD(P) binding site [chemical binding]; other site 406425010487 catalytic residues [active] 406425010488 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425010489 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 406425010490 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425010491 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425010492 DNA binding site [nucleotide binding] 406425010493 AAA ATPase domain; Region: AAA_16; pfam13191 406425010494 Predicted ATPase [General function prediction only]; Region: COG3903 406425010495 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425010496 MULE transposase domain; Region: MULE; pfam10551 406425010497 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 406425010498 motif 1; other site 406425010499 dimer interface [polypeptide binding]; other site 406425010500 active site 406425010501 motif 2; other site 406425010502 HEXXH motif domain; Region: mod_HExxH; TIGR04267 406425010503 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425010504 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 406425010505 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 406425010506 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 406425010507 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 406425010508 dimer interface [polypeptide binding]; other site 406425010509 active site 406425010510 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 406425010511 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 406425010512 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 406425010513 putative alpha subunit interface [polypeptide binding]; other site 406425010514 putative active site [active] 406425010515 putative substrate binding site [chemical binding]; other site 406425010516 Fe binding site [ion binding]; other site 406425010517 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 406425010518 inter-subunit interface; other site 406425010519 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 406425010520 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425010521 catalytic loop [active] 406425010522 iron binding site [ion binding]; other site 406425010523 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 406425010524 FAD binding pocket [chemical binding]; other site 406425010525 FAD binding motif [chemical binding]; other site 406425010526 phosphate binding motif [ion binding]; other site 406425010527 beta-alpha-beta structure motif; other site 406425010528 NAD binding pocket [chemical binding]; other site 406425010529 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 406425010530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010531 NAD(P) binding site [chemical binding]; other site 406425010532 active site 406425010533 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 406425010534 homotrimer interaction site [polypeptide binding]; other site 406425010535 putative active site [active] 406425010536 Tannase and feruloyl esterase; Region: Tannase; pfam07519 406425010537 Tannase and feruloyl esterase; Region: Tannase; pfam07519 406425010538 short chain dehydrogenase; Provisional; Region: PRK06179 406425010539 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425010540 NADP binding site [chemical binding]; other site 406425010541 active site 406425010542 steroid binding site; other site 406425010543 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425010544 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425010545 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425010546 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425010547 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425010548 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425010549 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425010550 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425010551 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425010552 Cytochrome c; Region: Cytochrom_C; pfam00034 406425010553 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 406425010554 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 406425010555 D-pathway; other site 406425010556 Putative ubiquinol binding site [chemical binding]; other site 406425010557 Low-spin heme (heme b) binding site [chemical binding]; other site 406425010558 Putative water exit pathway; other site 406425010559 Binuclear center (heme o3/CuB) [ion binding]; other site 406425010560 K-pathway; other site 406425010561 Putative proton exit pathway; other site 406425010562 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 406425010563 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 406425010564 Cytochrome c; Region: Cytochrom_C; pfam00034 406425010565 thiamine pyrophosphate protein; Provisional; Region: PRK08273 406425010566 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 406425010567 PYR/PP interface [polypeptide binding]; other site 406425010568 dimer interface [polypeptide binding]; other site 406425010569 tetramer interface [polypeptide binding]; other site 406425010570 TPP binding site [chemical binding]; other site 406425010571 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425010572 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 406425010573 TPP-binding site [chemical binding]; other site 406425010574 Domain of unknown function (DUF305); Region: DUF305; cl17794 406425010575 FRG domain; Region: FRG; pfam08867 406425010576 Low affinity iron permease; Region: Iron_permease; pfam04120 406425010577 BON domain; Region: BON; pfam04972 406425010578 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 406425010579 nudix motif; other site 406425010580 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425010581 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 406425010582 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425010583 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425010584 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010585 putative substrate translocation pore; other site 406425010586 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425010587 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 406425010588 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425010589 active site 406425010590 phosphorylation site [posttranslational modification] 406425010591 intermolecular recognition site; other site 406425010592 dimerization interface [polypeptide binding]; other site 406425010593 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425010594 DNA binding site [nucleotide binding] 406425010595 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425010596 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 406425010597 regulatory phosphorylation site [posttranslational modification]; other site 406425010598 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 406425010599 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 406425010600 PhnA protein; Region: PhnA; pfam03831 406425010601 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 406425010602 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 406425010603 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 406425010604 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 406425010605 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 406425010606 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425010607 Walker A/P-loop; other site 406425010608 ATP binding site [chemical binding]; other site 406425010609 Q-loop/lid; other site 406425010610 ABC transporter signature motif; other site 406425010611 Walker B; other site 406425010612 D-loop; other site 406425010613 H-loop/switch region; other site 406425010614 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 406425010615 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425010616 Walker A/P-loop; other site 406425010617 ATP binding site [chemical binding]; other site 406425010618 Q-loop/lid; other site 406425010619 ABC transporter signature motif; other site 406425010620 Walker B; other site 406425010621 D-loop; other site 406425010622 H-loop/switch region; other site 406425010623 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425010624 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 406425010625 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010626 dimer interface [polypeptide binding]; other site 406425010627 conserved gate region; other site 406425010628 putative PBP binding loops; other site 406425010629 ABC-ATPase subunit interface; other site 406425010630 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 406425010631 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425010632 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 406425010633 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 406425010634 putative acetyltransferase; Provisional; Region: PRK03624 406425010635 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425010636 Coenzyme A binding pocket [chemical binding]; other site 406425010637 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 406425010638 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425010639 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425010640 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 406425010641 active site 406425010642 non-prolyl cis peptide bond; other site 406425010643 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010644 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425010645 substrate binding pocket [chemical binding]; other site 406425010646 membrane-bound complex binding site; other site 406425010647 hinge residues; other site 406425010648 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425010649 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425010650 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010651 putative PBP binding loops; other site 406425010652 dimer interface [polypeptide binding]; other site 406425010653 ABC-ATPase subunit interface; other site 406425010654 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010655 dimer interface [polypeptide binding]; other site 406425010656 conserved gate region; other site 406425010657 putative PBP binding loops; other site 406425010658 ABC-ATPase subunit interface; other site 406425010659 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 406425010660 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425010661 active site 406425010662 non-prolyl cis peptide bond; other site 406425010663 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425010664 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425010665 Walker A/P-loop; other site 406425010666 ATP binding site [chemical binding]; other site 406425010667 Q-loop/lid; other site 406425010668 ABC transporter signature motif; other site 406425010669 Walker B; other site 406425010670 D-loop; other site 406425010671 H-loop/switch region; other site 406425010672 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425010673 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425010674 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425010675 TM-ABC transporter signature motif; other site 406425010676 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 406425010677 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425010678 putative ligand binding site [chemical binding]; other site 406425010679 OsmC-like protein; Region: OsmC; pfam02566 406425010680 Cupin; Region: Cupin_6; pfam12852 406425010681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010682 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425010683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010684 oxidoreductase; Provisional; Region: PRK06196 406425010685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010686 NAD(P) binding site [chemical binding]; other site 406425010687 active site 406425010688 MgtC family; Region: MgtC; pfam02308 406425010689 FOG: CBS domain [General function prediction only]; Region: COG0517 406425010690 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 406425010691 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 406425010692 oxidoreductase; Provisional; Region: PRK06128 406425010693 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 406425010694 NAD binding site [chemical binding]; other site 406425010695 metal binding site [ion binding]; metal-binding site 406425010696 active site 406425010697 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 406425010698 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425010699 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425010700 NMT1-like family; Region: NMT1_2; pfam13379 406425010701 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425010702 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425010703 Walker A/P-loop; other site 406425010704 ATP binding site [chemical binding]; other site 406425010705 Q-loop/lid; other site 406425010706 ABC transporter signature motif; other site 406425010707 Walker B; other site 406425010708 D-loop; other site 406425010709 H-loop/switch region; other site 406425010710 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425010711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010712 dimer interface [polypeptide binding]; other site 406425010713 ABC-ATPase subunit interface; other site 406425010714 putative PBP binding loops; other site 406425010715 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 406425010716 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 406425010717 Flavin binding site [chemical binding]; other site 406425010718 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425010719 active site 406425010720 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 406425010721 dimer interface [polypeptide binding]; other site 406425010722 non-prolyl cis peptide bond; other site 406425010723 insertion regions; other site 406425010724 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 406425010725 Moco binding site; other site 406425010726 metal coordination site [ion binding]; other site 406425010727 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425010728 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425010729 trimer interface [polypeptide binding]; other site 406425010730 eyelet of channel; other site 406425010731 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 406425010732 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425010733 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010734 substrate binding pocket [chemical binding]; other site 406425010735 membrane-bound complex binding site; other site 406425010736 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 406425010737 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 406425010738 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 406425010739 active site 406425010740 Zn binding site [ion binding]; other site 406425010741 Homeodomain-like domain; Region: HTH_23; pfam13384 406425010742 Winged helix-turn helix; Region: HTH_29; pfam13551 406425010743 Homeodomain-like domain; Region: HTH_32; pfam13565 406425010744 Integrase core domain; Region: rve; pfam00665 406425010745 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425010746 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 406425010747 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 406425010748 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 406425010749 putative metal binding site [ion binding]; other site 406425010750 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425010751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425010752 Walker A/P-loop; other site 406425010753 ATP binding site [chemical binding]; other site 406425010754 Q-loop/lid; other site 406425010755 ABC transporter signature motif; other site 406425010756 Walker B; other site 406425010757 D-loop; other site 406425010758 H-loop/switch region; other site 406425010759 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010760 dimer interface [polypeptide binding]; other site 406425010761 conserved gate region; other site 406425010762 putative PBP binding loops; other site 406425010763 ABC-ATPase subunit interface; other site 406425010764 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010765 dimer interface [polypeptide binding]; other site 406425010766 conserved gate region; other site 406425010767 putative PBP binding loops; other site 406425010768 ABC-ATPase subunit interface; other site 406425010769 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425010770 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010771 substrate binding pocket [chemical binding]; other site 406425010772 membrane-bound complex binding site; other site 406425010773 hinge residues; other site 406425010774 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 406425010775 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 406425010776 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425010777 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425010778 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425010779 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425010780 inhibitor site; inhibition site 406425010781 active site 406425010782 dimer interface [polypeptide binding]; other site 406425010783 catalytic residue [active] 406425010784 phenylhydantoinase; Validated; Region: PRK08323 406425010785 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 406425010786 tetramer interface [polypeptide binding]; other site 406425010787 active site 406425010788 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 406425010789 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 406425010790 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 406425010791 TPP-binding site [chemical binding]; other site 406425010792 dimer interface [polypeptide binding]; other site 406425010793 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425010794 PYR/PP interface [polypeptide binding]; other site 406425010795 dimer interface [polypeptide binding]; other site 406425010796 TPP binding site [chemical binding]; other site 406425010797 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425010798 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425010799 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425010800 trimer interface [polypeptide binding]; other site 406425010801 eyelet of channel; other site 406425010802 benzoate transport; Region: 2A0115; TIGR00895 406425010803 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010804 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010805 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 406425010806 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 406425010807 substrate binding site [chemical binding]; other site 406425010808 Protein of unknown function (DUF521); Region: DUF521; pfam04412 406425010809 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 406425010810 substrate binding site [chemical binding]; other site 406425010811 ligand binding site [chemical binding]; other site 406425010812 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 406425010813 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 406425010814 active site 406425010815 iron coordination sites [ion binding]; other site 406425010816 substrate binding pocket [chemical binding]; other site 406425010817 benzoate transport; Region: 2A0115; TIGR00895 406425010818 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010819 putative substrate translocation pore; other site 406425010820 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010821 Dehydratase family; Region: ILVD_EDD; pfam00920 406425010822 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 406425010823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425010824 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 406425010825 substrate binding pocket [chemical binding]; other site 406425010826 dimerization interface [polypeptide binding]; other site 406425010827 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425010828 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 406425010829 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 406425010830 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 406425010831 NADP binding site [chemical binding]; other site 406425010832 Amidohydrolase; Region: Amidohydro_2; pfam04909 406425010833 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425010834 Domain of unknown function (DUF718); Region: DUF718; pfam05336 406425010835 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425010836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010837 NAD(P) binding site [chemical binding]; other site 406425010838 active site 406425010839 L-rhamnonate dehydratase; Provisional; Region: PRK15440 406425010840 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 406425010841 putative active site pocket [active] 406425010842 putative metal binding site [ion binding]; other site 406425010843 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425010844 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425010845 inhibitor site; inhibition site 406425010846 active site 406425010847 dimer interface [polypeptide binding]; other site 406425010848 catalytic residue [active] 406425010849 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 406425010850 Ligand binding site; other site 406425010851 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 406425010852 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425010853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425010854 DNA-binding site [nucleotide binding]; DNA binding site 406425010855 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 406425010856 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 406425010857 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 406425010858 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425010859 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 406425010860 homotrimer interaction site [polypeptide binding]; other site 406425010861 putative active site [active] 406425010862 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425010863 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 406425010864 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425010865 TM-ABC transporter signature motif; other site 406425010866 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425010867 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425010868 TM-ABC transporter signature motif; other site 406425010869 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425010870 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425010871 Walker A/P-loop; other site 406425010872 ATP binding site [chemical binding]; other site 406425010873 Q-loop/lid; other site 406425010874 ABC transporter signature motif; other site 406425010875 Walker B; other site 406425010876 D-loop; other site 406425010877 H-loop/switch region; other site 406425010878 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425010879 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425010880 Walker A/P-loop; other site 406425010881 ATP binding site [chemical binding]; other site 406425010882 Q-loop/lid; other site 406425010883 ABC transporter signature motif; other site 406425010884 Walker B; other site 406425010885 D-loop; other site 406425010886 H-loop/switch region; other site 406425010887 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010888 putative substrate translocation pore; other site 406425010889 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 406425010890 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 406425010891 substrate binding site; other site 406425010892 tetramer interface; other site 406425010893 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 406425010894 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 406425010895 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 406425010896 NADP binding site [chemical binding]; other site 406425010897 active site 406425010898 putative substrate binding site [chemical binding]; other site 406425010899 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 406425010900 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 406425010901 NAD binding site [chemical binding]; other site 406425010902 substrate binding site [chemical binding]; other site 406425010903 homodimer interface [polypeptide binding]; other site 406425010904 active site 406425010905 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 406425010906 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 406425010907 putative dimer interface [polypeptide binding]; other site 406425010908 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 406425010909 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 406425010910 putative dimer interface [polypeptide binding]; other site 406425010911 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 406425010912 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425010913 PYR/PP interface [polypeptide binding]; other site 406425010914 dimer interface [polypeptide binding]; other site 406425010915 TPP binding site [chemical binding]; other site 406425010916 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425010917 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 406425010918 TPP-binding site [chemical binding]; other site 406425010919 dimer interface [polypeptide binding]; other site 406425010920 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010921 D-galactonate transporter; Region: 2A0114; TIGR00893 406425010922 putative substrate translocation pore; other site 406425010923 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425010924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010925 NAD(P) binding site [chemical binding]; other site 406425010926 active site 406425010927 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425010928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425010929 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425010930 dimerization interface [polypeptide binding]; other site 406425010931 substrate binding pocket [chemical binding]; other site 406425010932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425010934 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425010935 putative dimerization interface [polypeptide binding]; other site 406425010936 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425010937 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425010938 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 406425010939 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 406425010940 citrate-proton symporter; Provisional; Region: PRK15075 406425010941 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010942 putative substrate translocation pore; other site 406425010943 Cache domain; Region: Cache_1; pfam02743 406425010944 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425010945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425010946 metal binding site [ion binding]; metal-binding site 406425010947 active site 406425010948 I-site; other site 406425010949 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425010951 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425010952 putative effector binding pocket; other site 406425010953 dimerization interface [polypeptide binding]; other site 406425010954 NmrA-like family; Region: NmrA; pfam05368 406425010955 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 406425010956 NADP binding site [chemical binding]; other site 406425010957 active site 406425010958 regulatory binding site [polypeptide binding]; other site 406425010959 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425010960 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425010961 metal binding site [ion binding]; metal-binding site 406425010962 putative dimer interface [polypeptide binding]; other site 406425010963 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 406425010964 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425010965 NAD binding site [chemical binding]; other site 406425010966 catalytic residues [active] 406425010967 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425010968 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425010969 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 406425010970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010971 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425010972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010973 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425010974 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425010975 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 406425010976 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425010977 Walker A/P-loop; other site 406425010978 ATP binding site [chemical binding]; other site 406425010979 Q-loop/lid; other site 406425010980 ABC transporter signature motif; other site 406425010981 Walker B; other site 406425010982 D-loop; other site 406425010983 H-loop/switch region; other site 406425010984 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425010985 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425010986 Walker A/P-loop; other site 406425010987 ATP binding site [chemical binding]; other site 406425010988 Q-loop/lid; other site 406425010989 ABC transporter signature motif; other site 406425010990 Walker B; other site 406425010991 D-loop; other site 406425010992 H-loop/switch region; other site 406425010993 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 406425010994 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 406425010995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010996 dimer interface [polypeptide binding]; other site 406425010997 conserved gate region; other site 406425010998 ABC-ATPase subunit interface; other site 406425010999 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 406425011000 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011001 dimer interface [polypeptide binding]; other site 406425011002 conserved gate region; other site 406425011003 putative PBP binding loops; other site 406425011004 ABC-ATPase subunit interface; other site 406425011005 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 406425011006 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 406425011007 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 406425011008 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425011009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425011010 dimer interface [polypeptide binding]; other site 406425011011 putative CheW interface [polypeptide binding]; other site 406425011012 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 406425011013 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425011014 motif II; other site 406425011015 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425011016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425011017 Coenzyme A binding pocket [chemical binding]; other site 406425011018 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 406425011019 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 406425011020 putative ligand binding site [chemical binding]; other site 406425011021 NAD binding site [chemical binding]; other site 406425011022 dimerization interface [polypeptide binding]; other site 406425011023 catalytic site [active] 406425011024 hypothetical protein; Provisional; Region: PRK05965 406425011025 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425011026 inhibitor-cofactor binding pocket; inhibition site 406425011027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425011028 catalytic residue [active] 406425011029 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425011030 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425011031 putative DNA binding site [nucleotide binding]; other site 406425011032 putative Zn2+ binding site [ion binding]; other site 406425011033 AsnC family; Region: AsnC_trans_reg; pfam01037 406425011034 succinic semialdehyde dehydrogenase; Region: PLN02278 406425011035 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 406425011036 tetramerization interface [polypeptide binding]; other site 406425011037 NAD(P) binding site [chemical binding]; other site 406425011038 catalytic residues [active] 406425011039 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425011040 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425011042 Zn2+ binding site [ion binding]; other site 406425011043 Mg2+ binding site [ion binding]; other site 406425011044 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425011045 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425011046 DNA binding residues [nucleotide binding] 406425011047 dimerization interface [polypeptide binding]; other site 406425011048 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425011049 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425011050 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 406425011051 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 406425011052 Methyltransferase domain; Region: Methyltransf_31; pfam13847 406425011053 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425011054 S-adenosylmethionine binding site [chemical binding]; other site 406425011055 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425011056 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011057 putative substrate translocation pore; other site 406425011058 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425011059 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425011060 DNA binding site [nucleotide binding] 406425011061 domain linker motif; other site 406425011062 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 406425011063 putative dimerization interface [polypeptide binding]; other site 406425011064 putative ligand binding site [chemical binding]; other site 406425011065 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 406425011066 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 406425011067 Class I aldolases; Region: Aldolase_Class_I; cl17187 406425011068 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425011069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011071 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 406425011072 putative dimerization interface [polypeptide binding]; other site 406425011073 tricarballylate dehydrogenase; Validated; Region: PRK08274 406425011074 tricarballylate utilization protein B; Provisional; Region: PRK15033 406425011075 citrate-proton symporter; Provisional; Region: PRK15075 406425011076 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011077 putative substrate translocation pore; other site 406425011078 Cache domain; Region: Cache_1; pfam02743 406425011079 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425011080 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425011081 dimer interface [polypeptide binding]; other site 406425011082 putative CheW interface [polypeptide binding]; other site 406425011083 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425011084 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425011085 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425011086 dimer interface [polypeptide binding]; other site 406425011087 putative CheW interface [polypeptide binding]; other site 406425011088 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 406425011089 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 406425011090 active site 406425011091 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 406425011092 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 406425011093 galactarate dehydratase; Region: galactar-dH20; TIGR03248 406425011094 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 406425011095 altronate oxidoreductase; Provisional; Region: PRK03643 406425011096 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 406425011097 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425011098 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 406425011099 putative NAD(P) binding site [chemical binding]; other site 406425011100 catalytic Zn binding site [ion binding]; other site 406425011101 structural Zn binding site [ion binding]; other site 406425011102 Amidohydrolase; Region: Amidohydro_2; pfam04909 406425011103 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425011104 active site 406425011105 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425011106 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425011107 active site 406425011108 catalytic tetrad [active] 406425011109 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 406425011110 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425011111 putative ligand binding site [chemical binding]; other site 406425011112 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425011113 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425011114 TM-ABC transporter signature motif; other site 406425011115 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425011116 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425011117 Walker A/P-loop; other site 406425011118 ATP binding site [chemical binding]; other site 406425011119 Q-loop/lid; other site 406425011120 ABC transporter signature motif; other site 406425011121 Walker B; other site 406425011122 D-loop; other site 406425011123 H-loop/switch region; other site 406425011124 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425011125 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425011126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425011127 DNA-binding site [nucleotide binding]; DNA binding site 406425011128 FCD domain; Region: FCD; pfam07729 406425011129 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 406425011130 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425011131 N-terminal plug; other site 406425011132 ligand-binding site [chemical binding]; other site 406425011133 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 406425011134 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 406425011135 transmembrane helices; other site 406425011136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011137 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425011138 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425011139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011140 active site 406425011141 phosphorylation site [posttranslational modification] 406425011142 intermolecular recognition site; other site 406425011143 dimerization interface [polypeptide binding]; other site 406425011144 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425011145 Walker A motif; other site 406425011146 ATP binding site [chemical binding]; other site 406425011147 Walker B motif; other site 406425011148 arginine finger; other site 406425011149 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425011150 dimer interface [polypeptide binding]; other site 406425011151 phosphorylation site [posttranslational modification] 406425011152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011153 ATP binding site [chemical binding]; other site 406425011154 G-X-G motif; other site 406425011155 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425011156 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425011157 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425011158 TM-ABC transporter signature motif; other site 406425011159 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 406425011160 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425011161 Walker A/P-loop; other site 406425011162 ATP binding site [chemical binding]; other site 406425011163 Q-loop/lid; other site 406425011164 ABC transporter signature motif; other site 406425011165 Walker B; other site 406425011166 D-loop; other site 406425011167 H-loop/switch region; other site 406425011168 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425011169 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 406425011170 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 406425011171 putative ligand binding site [chemical binding]; other site 406425011172 xylulokinase; Provisional; Region: PRK15027 406425011173 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 406425011174 N- and C-terminal domain interface [polypeptide binding]; other site 406425011175 active site 406425011176 MgATP binding site [chemical binding]; other site 406425011177 catalytic site [active] 406425011178 metal binding site [ion binding]; metal-binding site 406425011179 xylulose binding site [chemical binding]; other site 406425011180 homodimer interface [polypeptide binding]; other site 406425011181 xylose isomerase; Provisional; Region: PRK05474 406425011182 xylose isomerase; Region: xylose_isom_A; TIGR02630 406425011183 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 406425011184 putative dimerization interface [polypeptide binding]; other site 406425011185 putative ligand binding site [chemical binding]; other site 406425011186 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425011187 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425011188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011189 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 406425011190 active site 406425011191 catalytic residues [active] 406425011192 Cupin; Region: Cupin_6; pfam12852 406425011193 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425011194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011195 Uncharacterized conserved protein [Function unknown]; Region: COG2128 406425011196 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425011197 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425011198 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425011199 active site 406425011200 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425011201 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425011202 Walker A/P-loop; other site 406425011203 ATP binding site [chemical binding]; other site 406425011204 Q-loop/lid; other site 406425011205 ABC transporter signature motif; other site 406425011206 Walker B; other site 406425011207 D-loop; other site 406425011208 H-loop/switch region; other site 406425011209 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425011210 NMT1-like family; Region: NMT1_2; pfam13379 406425011211 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425011212 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011213 dimer interface [polypeptide binding]; other site 406425011214 conserved gate region; other site 406425011215 putative PBP binding loops; other site 406425011216 ABC-ATPase subunit interface; other site 406425011217 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 406425011218 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 406425011219 Flavin binding site [chemical binding]; other site 406425011220 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425011221 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 406425011222 active site 406425011223 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 406425011224 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425011225 active site 406425011226 non-prolyl cis peptide bond; other site 406425011227 benzoate transport; Region: 2A0115; TIGR00895 406425011228 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011229 putative substrate translocation pore; other site 406425011230 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425011231 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011232 substrate binding pocket [chemical binding]; other site 406425011233 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 406425011234 membrane-bound complex binding site; other site 406425011235 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425011236 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011237 dimer interface [polypeptide binding]; other site 406425011238 conserved gate region; other site 406425011239 putative PBP binding loops; other site 406425011240 ABC-ATPase subunit interface; other site 406425011241 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425011242 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 406425011243 Walker A/P-loop; other site 406425011244 ATP binding site [chemical binding]; other site 406425011245 Q-loop/lid; other site 406425011246 ABC transporter signature motif; other site 406425011247 Walker B; other site 406425011248 D-loop; other site 406425011249 H-loop/switch region; other site 406425011250 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425011251 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425011252 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 406425011253 transcriptional regulator MerD; Provisional; Region: PRK13749 406425011254 DNA binding residues [nucleotide binding] 406425011255 putative dimer interface [polypeptide binding]; other site 406425011256 topology modulation protein; Provisional; Region: PRK07261 406425011257 AAA domain; Region: AAA_17; pfam13207 406425011258 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425011259 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 406425011260 active site 406425011261 metal binding site [ion binding]; metal-binding site 406425011262 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 406425011263 trimer interface [polypeptide binding]; other site 406425011264 YadA-like C-terminal region; Region: YadA; pfam03895 406425011265 Response regulator receiver domain; Region: Response_reg; pfam00072 406425011266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011267 active site 406425011268 phosphorylation site [posttranslational modification] 406425011269 intermolecular recognition site; other site 406425011270 dimerization interface [polypeptide binding]; other site 406425011271 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425011272 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011273 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 406425011274 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425011275 N-terminal plug; other site 406425011276 ligand-binding site [chemical binding]; other site 406425011277 Protein of unknown function DUF72; Region: DUF72; pfam01904 406425011278 Autotransporter beta-domain; Region: Autotransporter; pfam03797 406425011279 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425011280 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425011281 catalytic loop [active] 406425011282 iron binding site [ion binding]; other site 406425011283 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425011284 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425011285 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425011286 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425011287 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425011288 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011289 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 406425011290 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 406425011291 SnoaL-like domain; Region: SnoaL_2; pfam12680 406425011292 short chain dehydrogenase; Provisional; Region: PRK08265 406425011293 classical (c) SDRs; Region: SDR_c; cd05233 406425011294 NAD(P) binding site [chemical binding]; other site 406425011295 active site 406425011296 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 406425011297 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 406425011298 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 406425011299 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 406425011300 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 406425011301 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 406425011302 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 406425011303 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 406425011304 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 406425011305 ATP binding site [chemical binding]; other site 406425011306 Walker A motif; other site 406425011307 hexamer interface [polypeptide binding]; other site 406425011308 Walker B motif; other site 406425011309 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 406425011310 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 406425011311 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 406425011312 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 406425011313 TadE-like protein; Region: TadE; pfam07811 406425011314 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 406425011315 TadE-like protein; Region: TadE; pfam07811 406425011316 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 406425011317 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 406425011318 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 406425011319 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425011320 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 406425011321 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 406425011322 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 406425011323 active site 406425011324 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 406425011325 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 406425011326 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 406425011327 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 406425011328 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 406425011329 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 406425011330 Ligand binding site; other site 406425011331 Putative Catalytic site; other site 406425011332 DXD motif; other site 406425011333 Predicted membrane protein [Function unknown]; Region: COG2246 406425011334 GtrA-like protein; Region: GtrA; pfam04138 406425011335 Inclusion body protein; Region: PixA; pfam12306 406425011336 Inclusion body protein; Region: PixA; pfam12306 406425011337 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011338 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425011339 substrate binding pocket [chemical binding]; other site 406425011340 membrane-bound complex binding site; other site 406425011341 hinge residues; other site 406425011342 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425011343 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011344 putative substrate translocation pore; other site 406425011345 hypothetical protein; Provisional; Region: PRK07206 406425011346 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 406425011347 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011349 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011350 dimerization interface [polypeptide binding]; other site 406425011351 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 406425011352 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011353 putative substrate translocation pore; other site 406425011354 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425011355 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425011356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011357 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425011358 dimerization interface [polypeptide binding]; other site 406425011359 substrate binding pocket [chemical binding]; other site 406425011360 NIPSNAP; Region: NIPSNAP; pfam07978 406425011361 NIPSNAP; Region: NIPSNAP; pfam07978 406425011362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011364 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011365 dimerization interface [polypeptide binding]; other site 406425011366 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 406425011367 DNA-binding site [nucleotide binding]; DNA binding site 406425011368 RNA-binding motif; other site 406425011369 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425011370 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425011371 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425011372 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425011373 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425011374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011376 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 406425011377 substrate binding pocket [chemical binding]; other site 406425011378 dimerization interface [polypeptide binding]; other site 406425011379 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 406425011380 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 406425011381 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425011382 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425011383 active site 406425011384 metal binding site [ion binding]; metal-binding site 406425011385 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 406425011386 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 406425011387 active site 406425011388 catalytic site [active] 406425011389 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425011390 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425011391 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 406425011392 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 406425011393 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 406425011394 shikimate binding site; other site 406425011395 NAD(P) binding site [chemical binding]; other site 406425011396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011397 putative substrate translocation pore; other site 406425011398 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425011399 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425011400 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425011401 Coenzyme A binding pocket [chemical binding]; other site 406425011402 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 406425011403 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425011404 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425011405 Phosphoesterase family; Region: Phosphoesterase; pfam04185 406425011406 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425011407 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425011408 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 406425011409 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 406425011410 dimer interface [polypeptide binding]; other site 406425011411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425011412 catalytic residue [active] 406425011413 MAPEG family; Region: MAPEG; pfam01124 406425011414 NmrA (a transcriptional regulator), HSCARG (an NADPH sensor), and triphenylmethane reductase (TMR) like proteins, atypical (a) SDRs; Region: NmrA_TMR_like_SDR_a; cd08947 406425011415 NmrA-like family; Region: NmrA; pfam05368 406425011416 NADP binding site [chemical binding]; other site 406425011417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011419 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425011420 putative effector binding pocket; other site 406425011421 dimerization interface [polypeptide binding]; other site 406425011422 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 406425011423 conserved cys residue [active] 406425011424 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 406425011425 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425011426 NADP binding site [chemical binding]; other site 406425011427 active site 406425011428 steroid binding site; other site 406425011429 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425011430 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425011431 DNA-binding site [nucleotide binding]; DNA binding site 406425011432 FCD domain; Region: FCD; pfam07729 406425011433 aminotransferase; Validated; Region: PRK07046 406425011434 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425011435 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425011436 catalytic residue [active] 406425011437 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 406425011438 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425011439 short chain dehydrogenase; Provisional; Region: PRK06500 406425011440 classical (c) SDRs; Region: SDR_c; cd05233 406425011441 NAD(P) binding site [chemical binding]; other site 406425011442 active site 406425011443 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425011444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011445 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425011446 putative effector binding pocket; other site 406425011447 dimerization interface [polypeptide binding]; other site 406425011448 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011449 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011450 LysR substrate binding domain; Region: LysR_substrate; pfam03466 406425011451 dimerization interface [polypeptide binding]; other site 406425011452 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 406425011453 classical (c) SDRs; Region: SDR_c; cd05233 406425011454 NAD(P) binding site [chemical binding]; other site 406425011455 active site 406425011456 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425011457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011458 NAD(P) binding site [chemical binding]; other site 406425011459 active site 406425011460 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 406425011461 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 406425011462 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 406425011463 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011464 substrate binding pocket [chemical binding]; other site 406425011465 membrane-bound complex binding site; other site 406425011466 hinge residues; other site 406425011467 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425011468 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425011469 Walker A/P-loop; other site 406425011470 ATP binding site [chemical binding]; other site 406425011471 Q-loop/lid; other site 406425011472 ABC transporter signature motif; other site 406425011473 Walker B; other site 406425011474 D-loop; other site 406425011475 H-loop/switch region; other site 406425011476 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425011477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011478 dimer interface [polypeptide binding]; other site 406425011479 conserved gate region; other site 406425011480 putative PBP binding loops; other site 406425011481 ABC-ATPase subunit interface; other site 406425011482 allophanate hydrolase; Provisional; Region: PRK08186 406425011483 Amidase; Region: Amidase; cl11426 406425011484 urea carboxylase; Region: urea_carbox; TIGR02712 406425011485 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425011486 ATP-grasp domain; Region: ATP-grasp_4; cl17255 406425011487 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 406425011488 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 406425011489 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 406425011490 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 406425011491 carboxyltransferase (CT) interaction site; other site 406425011492 biotinylation site [posttranslational modification]; other site 406425011493 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 406425011494 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 406425011495 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 406425011496 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 406425011497 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011498 substrate binding pocket [chemical binding]; other site 406425011499 membrane-bound complex binding site; other site 406425011500 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 406425011501 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425011502 active site 406425011503 metal binding site [ion binding]; metal-binding site 406425011504 hexamer interface [polypeptide binding]; other site 406425011505 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 406425011506 motif 1; other site 406425011507 dimer interface [polypeptide binding]; other site 406425011508 active site 406425011509 motif 2; other site 406425011510 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 406425011511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011512 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011513 dimerization interface [polypeptide binding]; other site 406425011514 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425011515 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425011516 dimer interface [polypeptide binding]; other site 406425011517 phosphorylation site [posttranslational modification] 406425011518 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011519 ATP binding site [chemical binding]; other site 406425011520 Mg2+ binding site [ion binding]; other site 406425011521 G-X-G motif; other site 406425011522 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 406425011523 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 406425011524 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 406425011525 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 406425011526 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425011527 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425011528 dimer interface [polypeptide binding]; other site 406425011529 phosphorylation site [posttranslational modification] 406425011530 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011531 ATP binding site [chemical binding]; other site 406425011532 Mg2+ binding site [ion binding]; other site 406425011533 G-X-G motif; other site 406425011534 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 406425011535 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011536 active site 406425011537 phosphorylation site [posttranslational modification] 406425011538 intermolecular recognition site; other site 406425011539 dimerization interface [polypeptide binding]; other site 406425011540 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425011541 Zn2+ binding site [ion binding]; other site 406425011542 Mg2+ binding site [ion binding]; other site 406425011543 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425011544 Coenzyme A binding pocket [chemical binding]; other site 406425011545 RNase II stability modulator; Provisional; Region: PRK10060 406425011546 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 406425011547 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425011548 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 406425011549 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425011550 DNA-binding site [nucleotide binding]; DNA binding site 406425011551 FCD domain; Region: FCD; pfam07729 406425011552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425011553 Coenzyme A binding pocket [chemical binding]; other site 406425011554 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425011555 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425011556 trimer interface [polypeptide binding]; other site 406425011557 eyelet of channel; other site 406425011558 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011559 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011560 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425011561 dimerization interface [polypeptide binding]; other site 406425011562 substrate binding pocket [chemical binding]; other site 406425011563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011564 putative substrate translocation pore; other site 406425011565 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425011566 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 406425011567 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 406425011568 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425011569 DJ-1 family protein; Region: not_thiJ; TIGR01383 406425011570 Putative amidotransferase; Region: DUF4066; pfam13278 406425011571 conserved cys residue [active] 406425011572 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 406425011573 Uncharacterized conserved protein [Function unknown]; Region: COG4275 406425011574 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 406425011575 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 406425011576 Chromate transporter; Region: Chromate_transp; pfam02417 406425011577 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 406425011578 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 406425011579 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425011580 HAMP domain; Region: HAMP; pfam00672 406425011581 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425011582 dimer interface [polypeptide binding]; other site 406425011583 phosphorylation site [posttranslational modification] 406425011584 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011585 ATP binding site [chemical binding]; other site 406425011586 Mg2+ binding site [ion binding]; other site 406425011587 G-X-G motif; other site 406425011588 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011589 active site 406425011590 phosphorylation site [posttranslational modification] 406425011591 intermolecular recognition site; other site 406425011592 dimerization interface [polypeptide binding]; other site 406425011593 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425011594 DNA binding site [nucleotide binding] 406425011595 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 406425011596 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425011597 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425011598 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425011599 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425011600 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 406425011601 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011602 substrate binding pocket [chemical binding]; other site 406425011603 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 406425011604 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425011605 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425011606 catalytic residue [active] 406425011607 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425011608 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425011609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011611 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425011612 dimerization interface [polypeptide binding]; other site 406425011613 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425011614 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425011615 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011616 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425011617 substrate binding pocket [chemical binding]; other site 406425011618 membrane-bound complex binding site; other site 406425011619 hinge residues; other site 406425011620 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 406425011621 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 406425011622 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 406425011623 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425011624 Walker A/P-loop; other site 406425011625 ATP binding site [chemical binding]; other site 406425011626 Q-loop/lid; other site 406425011627 ABC transporter signature motif; other site 406425011628 Walker B; other site 406425011629 D-loop; other site 406425011630 H-loop/switch region; other site 406425011631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425011632 Walker A/P-loop; other site 406425011633 ATP binding site [chemical binding]; other site 406425011634 Q-loop/lid; other site 406425011635 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 406425011636 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 406425011637 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 406425011638 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 406425011639 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425011640 ligand binding site [chemical binding]; other site 406425011641 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425011642 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425011643 trimer interface [polypeptide binding]; other site 406425011644 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 406425011645 trimer interface [polypeptide binding]; other site 406425011646 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425011647 trimer interface [polypeptide binding]; other site 406425011648 YadA-like C-terminal region; Region: YadA; pfam03895 406425011649 Response regulator receiver domain; Region: Response_reg; pfam00072 406425011650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011651 active site 406425011652 phosphorylation site [posttranslational modification] 406425011653 intermolecular recognition site; other site 406425011654 dimerization interface [polypeptide binding]; other site 406425011655 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425011656 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011657 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 406425011658 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 406425011659 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425011660 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425011661 dimer interface [polypeptide binding]; other site 406425011662 phosphorylation site [posttranslational modification] 406425011663 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011664 ATP binding site [chemical binding]; other site 406425011665 Mg2+ binding site [ion binding]; other site 406425011666 G-X-G motif; other site 406425011667 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425011668 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425011669 TM-ABC transporter signature motif; other site 406425011670 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425011671 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425011672 TM-ABC transporter signature motif; other site 406425011673 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425011674 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425011675 Walker A/P-loop; other site 406425011676 ATP binding site [chemical binding]; other site 406425011677 Q-loop/lid; other site 406425011678 ABC transporter signature motif; other site 406425011679 Walker B; other site 406425011680 D-loop; other site 406425011681 H-loop/switch region; other site 406425011682 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425011683 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 406425011684 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425011685 putative ligand binding site [chemical binding]; other site 406425011686 Pirin-related protein [General function prediction only]; Region: COG1741 406425011687 Pirin; Region: Pirin; pfam02678 406425011688 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 406425011689 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425011690 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011692 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425011693 putative effector binding pocket; other site 406425011694 dimerization interface [polypeptide binding]; other site 406425011695 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 406425011696 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 406425011697 active site 406425011698 DNA binding site [nucleotide binding] 406425011699 Int/Topo IB signature motif; other site 406425011700 catalytic residues [active] 406425011701 proline/glycine betaine transporter; Provisional; Region: PRK10642 406425011702 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011703 putative substrate translocation pore; other site 406425011704 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 406425011705 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 406425011706 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011708 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425011709 dimerization interface [polypeptide binding]; other site 406425011710 substrate binding pocket [chemical binding]; other site 406425011711 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 406425011712 dinuclear metal binding motif [ion binding]; other site 406425011713 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425011714 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cd01060 406425011715 putative di-iron ligands [ion binding]; other site 406425011716 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 406425011717 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 406425011718 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 406425011719 acyl-activating enzyme (AAE) consensus motif; other site 406425011720 active site 406425011721 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 406425011722 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 406425011723 Walker A/P-loop; other site 406425011724 ATP binding site [chemical binding]; other site 406425011725 Q-loop/lid; other site 406425011726 ABC transporter signature motif; other site 406425011727 Walker B; other site 406425011728 D-loop; other site 406425011729 H-loop/switch region; other site 406425011730 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 406425011731 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425011732 FtsX-like permease family; Region: FtsX; pfam02687 406425011733 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 406425011734 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 406425011735 dinuclear metal binding motif [ion binding]; other site 406425011736 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 406425011737 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 406425011738 dimer interface [polypeptide binding]; other site 406425011739 active site 406425011740 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 406425011741 dimer interface [polypeptide binding]; other site 406425011742 active site 406425011743 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425011744 catalytic residues [active] 406425011745 substrate binding site [chemical binding]; other site 406425011746 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 406425011747 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425011748 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425011749 acyl-activating enzyme (AAE) consensus motif; other site 406425011750 acyl-activating enzyme (AAE) consensus motif; other site 406425011751 AMP binding site [chemical binding]; other site 406425011752 active site 406425011753 CoA binding site [chemical binding]; other site 406425011754 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425011755 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425011756 active site 406425011757 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 406425011758 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 406425011759 citrylCoA binding site [chemical binding]; other site 406425011760 oxalacetate binding site [chemical binding]; other site 406425011761 coenzyme A binding site [chemical binding]; other site 406425011762 catalytic triad [active] 406425011763 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425011764 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425011765 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 406425011766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425011767 Walker A/P-loop; other site 406425011768 ATP binding site [chemical binding]; other site 406425011769 Q-loop/lid; other site 406425011770 ABC transporter signature motif; other site 406425011771 Walker B; other site 406425011772 D-loop; other site 406425011773 H-loop/switch region; other site 406425011774 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 406425011775 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425011776 FAD binding domain; Region: FAD_binding_4; pfam01565 406425011777 DctM-like transporters; Region: DctM; pfam06808 406425011778 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 406425011779 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 406425011780 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 406425011781 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 406425011782 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 406425011783 dimerization interface [polypeptide binding]; other site 406425011784 DNA binding residues [nucleotide binding] 406425011785 cinnamoyl-CoA reductase; Region: PLN02214 406425011786 flavonoid reductase (FR), extended (e) SDRs; Region: FR_SDR_e; cd08958 406425011787 NADP binding site [chemical binding]; other site 406425011788 substrate binding site [chemical binding]; other site 406425011789 active site 406425011790 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425011791 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425011792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011793 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 406425011794 homotrimer interaction site [polypeptide binding]; other site 406425011795 putative active site [active] 406425011796 H-NS histone family; Region: Histone_HNS; pfam00816 406425011797 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425011798 Cupin domain; Region: Cupin_2; pfam07883 406425011799 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011801 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011802 dimerization interface [polypeptide binding]; other site 406425011803 LysE type translocator; Region: LysE; cl00565 406425011804 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 406425011805 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425011806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011807 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011808 dimerization interface [polypeptide binding]; other site 406425011809 Uncharacterized conserved protein [Function unknown]; Region: COG3268 406425011810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011811 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 406425011812 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 406425011813 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425011814 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425011815 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425011816 dimer interface [polypeptide binding]; other site 406425011817 putative CheW interface [polypeptide binding]; other site 406425011818 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425011819 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 406425011820 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425011821 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011823 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011824 dimerization interface [polypeptide binding]; other site 406425011825 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425011826 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 406425011827 catalytic site [active] 406425011828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011830 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425011831 putative effector binding pocket; other site 406425011832 putative dimerization interface [polypeptide binding]; other site 406425011833 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 406425011834 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425011835 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425011836 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425011837 active site 406425011838 catalytic tetrad [active] 406425011839 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425011840 hexamer interface [polypeptide binding]; other site 406425011841 active site 2 [active] 406425011842 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425011843 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425011844 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 406425011845 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 406425011846 Active site cavity [active] 406425011847 catalytic acid [active] 406425011848 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 406425011849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011850 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 406425011851 putative dimerization interface [polypeptide binding]; other site 406425011852 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425011853 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425011854 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 406425011855 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 406425011856 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011857 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425011858 substrate binding pocket [chemical binding]; other site 406425011859 membrane-bound complex binding site; other site 406425011860 hinge residues; other site 406425011861 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425011862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011863 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425011864 dimerization interface [polypeptide binding]; other site 406425011865 substrate binding pocket [chemical binding]; other site 406425011866 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 406425011867 putative hydrophobic ligand binding site [chemical binding]; other site 406425011868 protein interface [polypeptide binding]; other site 406425011869 gate; other site 406425011870 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425011871 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425011872 active site 406425011873 catalytic tetrad [active] 406425011874 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425011875 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425011876 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425011877 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425011878 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425011879 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 406425011880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425011882 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011883 dimerization interface [polypeptide binding]; other site 406425011884 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425011885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011886 NAD(P) binding site [chemical binding]; other site 406425011887 active site 406425011888 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 406425011889 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 406425011890 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 406425011891 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 406425011892 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425011893 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425011894 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 406425011895 Uncharacterized conserved protein [Function unknown]; Region: COG5476 406425011896 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 406425011897 MlrC C-terminus; Region: MlrC_C; pfam07171 406425011898 allantoate amidohydrolase; Reviewed; Region: PRK12893 406425011899 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425011900 active site 406425011901 metal binding site [ion binding]; metal-binding site 406425011902 dimer interface [polypeptide binding]; other site 406425011903 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425011904 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425011905 Walker A/P-loop; other site 406425011906 ATP binding site [chemical binding]; other site 406425011907 Q-loop/lid; other site 406425011908 ABC transporter signature motif; other site 406425011909 Walker B; other site 406425011910 D-loop; other site 406425011911 H-loop/switch region; other site 406425011912 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425011913 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425011914 Walker A/P-loop; other site 406425011915 ATP binding site [chemical binding]; other site 406425011916 Q-loop/lid; other site 406425011917 ABC transporter signature motif; other site 406425011918 Walker B; other site 406425011919 D-loop; other site 406425011920 H-loop/switch region; other site 406425011921 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425011922 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425011923 TM-ABC transporter signature motif; other site 406425011924 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425011925 TM-ABC transporter signature motif; other site 406425011926 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425011927 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 406425011928 putative ligand binding site [chemical binding]; other site 406425011929 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425011930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425011931 DNA-binding site [nucleotide binding]; DNA binding site 406425011932 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 406425011933 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 406425011934 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425011935 NAD binding site [chemical binding]; other site 406425011936 catalytic residues [active] 406425011937 hypothetical protein; Provisional; Region: PRK06541 406425011938 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425011939 inhibitor-cofactor binding pocket; inhibition site 406425011940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425011941 catalytic residue [active] 406425011942 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 406425011943 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425011944 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425011945 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011946 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425011947 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011948 dimer interface [polypeptide binding]; other site 406425011949 conserved gate region; other site 406425011950 putative PBP binding loops; other site 406425011951 ABC-ATPase subunit interface; other site 406425011952 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 406425011953 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011954 dimer interface [polypeptide binding]; other site 406425011955 conserved gate region; other site 406425011956 putative PBP binding loops; other site 406425011957 ABC-ATPase subunit interface; other site 406425011958 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 406425011959 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 406425011960 Walker A/P-loop; other site 406425011961 ATP binding site [chemical binding]; other site 406425011962 Q-loop/lid; other site 406425011963 ABC transporter signature motif; other site 406425011964 Walker B; other site 406425011965 D-loop; other site 406425011966 H-loop/switch region; other site 406425011967 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 406425011968 FOG: CBS domain [General function prediction only]; Region: COG0517 406425011969 Predicted transcriptional regulator [Transcription]; Region: COG3355 406425011970 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425011971 putative DNA binding site [nucleotide binding]; other site 406425011972 putative Zn2+ binding site [ion binding]; other site 406425011973 MarR family; Region: MarR_2; cl17246 406425011974 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425011975 Coenzyme A binding pocket [chemical binding]; other site 406425011976 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 406425011977 benzoate transport; Region: 2A0115; TIGR00895 406425011978 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011979 putative substrate translocation pore; other site 406425011980 H-NS histone family; Region: Histone_HNS; pfam00816 406425011981 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425011982 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 406425011983 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425011984 putative active site [active] 406425011985 putative NTP binding site [chemical binding]; other site 406425011986 putative nucleic acid binding site [nucleotide binding]; other site 406425011987 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 406425011988 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425011989 DNA-binding site [nucleotide binding]; DNA binding site 406425011990 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 406425011991 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 406425011992 active sites [active] 406425011993 tetramer interface [polypeptide binding]; other site 406425011994 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425011995 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425011996 Walker A/P-loop; other site 406425011997 ATP binding site [chemical binding]; other site 406425011998 Q-loop/lid; other site 406425011999 ABC transporter signature motif; other site 406425012000 Walker B; other site 406425012001 D-loop; other site 406425012002 H-loop/switch region; other site 406425012003 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012004 dimer interface [polypeptide binding]; other site 406425012005 conserved gate region; other site 406425012006 putative PBP binding loops; other site 406425012007 ABC-ATPase subunit interface; other site 406425012008 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425012009 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012010 dimer interface [polypeptide binding]; other site 406425012011 conserved gate region; other site 406425012012 putative PBP binding loops; other site 406425012013 ABC-ATPase subunit interface; other site 406425012014 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425012015 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425012016 substrate binding pocket [chemical binding]; other site 406425012017 membrane-bound complex binding site; other site 406425012018 hinge residues; other site 406425012019 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 406425012020 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 406425012021 NADP binding site [chemical binding]; other site 406425012022 active site 406425012023 putative substrate binding site [chemical binding]; other site 406425012024 Predicted membrane protein [Function unknown]; Region: COG2259 406425012025 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 406425012026 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 406425012027 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 406425012028 Nitrate and nitrite sensing; Region: NIT; pfam08376 406425012029 ANTAR domain; Region: ANTAR; pfam03861 406425012030 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 406425012031 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425012032 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425012033 inhibitor site; inhibition site 406425012034 active site 406425012035 dimer interface [polypeptide binding]; other site 406425012036 catalytic residue [active] 406425012037 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012038 D-galactonate transporter; Region: 2A0114; TIGR00893 406425012039 putative substrate translocation pore; other site 406425012040 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425012041 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 406425012042 substrate binding site [chemical binding]; other site 406425012043 dimer interface [polypeptide binding]; other site 406425012044 ATP binding site [chemical binding]; other site 406425012045 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425012046 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425012047 DNA binding site [nucleotide binding] 406425012048 domain linker motif; other site 406425012049 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 406425012050 putative dimerization interface [polypeptide binding]; other site 406425012051 putative ligand binding site [chemical binding]; other site 406425012052 Fic family protein [Function unknown]; Region: COG3177 406425012053 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 406425012054 Fic/DOC family; Region: Fic; pfam02661 406425012055 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 406425012056 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425012057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012058 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425012059 putative effector binding pocket; other site 406425012060 dimerization interface [polypeptide binding]; other site 406425012061 Pirin-related protein [General function prediction only]; Region: COG1741 406425012062 Pirin; Region: Pirin; pfam02678 406425012063 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 406425012064 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425012065 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 406425012066 LrgA family; Region: LrgA; pfam03788 406425012067 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 406425012068 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425012069 substrate binding pocket [chemical binding]; other site 406425012070 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425012071 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 406425012072 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425012073 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425012074 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 406425012075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425012076 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 406425012077 Walker A/P-loop; other site 406425012078 ATP binding site [chemical binding]; other site 406425012079 Q-loop/lid; other site 406425012080 ABC transporter signature motif; other site 406425012081 Walker B; other site 406425012082 D-loop; other site 406425012083 H-loop/switch region; other site 406425012084 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425012085 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425012086 trimer interface [polypeptide binding]; other site 406425012087 eyelet of channel; other site 406425012088 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425012089 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 406425012090 putative C-terminal domain interface [polypeptide binding]; other site 406425012091 putative GSH binding site (G-site) [chemical binding]; other site 406425012092 putative dimer interface [polypeptide binding]; other site 406425012093 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 406425012094 putative N-terminal domain interface [polypeptide binding]; other site 406425012095 putative dimer interface [polypeptide binding]; other site 406425012096 putative substrate binding pocket (H-site) [chemical binding]; other site 406425012097 Acyltransferase family; Region: Acyl_transf_3; pfam01757 406425012098 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012100 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012101 dimerization interface [polypeptide binding]; other site 406425012102 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 406425012103 EamA-like transporter family; Region: EamA; pfam00892 406425012104 EamA-like transporter family; Region: EamA; pfam00892 406425012105 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425012106 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425012107 dimerization interface [polypeptide binding]; other site 406425012108 ligand binding site [chemical binding]; other site 406425012109 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425012110 FAD binding domain; Region: FAD_binding_4; pfam01565 406425012111 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 406425012112 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425012113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012114 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012115 dimerization interface [polypeptide binding]; other site 406425012116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012118 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012119 dimerization interface [polypeptide binding]; other site 406425012120 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425012121 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 406425012122 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425012123 active site 406425012124 dimer interface [polypeptide binding]; other site 406425012125 non-prolyl cis peptide bond; other site 406425012126 insertion regions; other site 406425012127 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425012128 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 406425012129 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 406425012130 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425012131 Walker A motif; other site 406425012132 ATP binding site [chemical binding]; other site 406425012133 Walker B motif; other site 406425012134 arginine finger; other site 406425012135 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 406425012136 dihydroxyacetone kinase; Provisional; Region: PRK14479 406425012137 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 406425012138 DAK2 domain; Region: Dak2; pfam02734 406425012139 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 406425012140 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012141 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425012142 putative substrate translocation pore; other site 406425012143 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425012144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 406425012145 DNA-binding site [nucleotide binding]; DNA binding site 406425012146 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425012147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425012148 homodimer interface [polypeptide binding]; other site 406425012149 catalytic residue [active] 406425012150 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 406425012151 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 406425012152 hypothetical protein; Provisional; Region: PRK07482 406425012153 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425012154 inhibitor-cofactor binding pocket; inhibition site 406425012155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425012156 catalytic residue [active] 406425012157 succinic semialdehyde dehydrogenase; Region: PLN02278 406425012158 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 406425012159 tetramerization interface [polypeptide binding]; other site 406425012160 NAD(P) binding site [chemical binding]; other site 406425012161 catalytic residues [active] 406425012162 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425012163 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425012164 putative DNA binding site [nucleotide binding]; other site 406425012165 putative Zn2+ binding site [ion binding]; other site 406425012166 AsnC family; Region: AsnC_trans_reg; pfam01037 406425012167 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 406425012168 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 406425012169 putative active site [active] 406425012170 Zn binding site [ion binding]; other site 406425012171 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 406425012172 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 406425012173 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 406425012174 active site 406425012175 ectoine utilization protein EutC; Validated; Region: PRK08291 406425012176 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 406425012177 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 406425012178 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 406425012179 tetramer interface [polypeptide binding]; other site 406425012180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425012181 catalytic residue [active] 406425012182 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425012183 DNA-binding site [nucleotide binding]; DNA binding site 406425012184 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425012185 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425012186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425012187 homodimer interface [polypeptide binding]; other site 406425012188 catalytic residue [active] 406425012189 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 406425012190 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425012191 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425012192 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425012193 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425012194 active site 406425012195 Uncharacterized conserved protein [Function unknown]; Region: COG3777 406425012196 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012197 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012198 active site 2 [active] 406425012199 active site 1 [active] 406425012200 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425012201 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 406425012202 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425012203 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 406425012204 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 406425012205 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 406425012206 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425012207 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425012208 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425012209 TOBE domain; Region: TOBE; cl01440 406425012210 TOBE domain; Region: TOBE; cl01440 406425012211 NifQ; Region: NifQ; pfam04891 406425012212 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 406425012213 EamA-like transporter family; Region: EamA; cl17759 406425012214 ProQ/FINO family; Region: ProQ; pfam04352 406425012215 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 406425012216 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 406425012217 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 406425012218 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425012219 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 406425012220 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425012221 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425012222 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 406425012223 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 406425012224 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 406425012225 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425012226 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425012227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012228 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 406425012229 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425012230 P-loop; other site 406425012231 Magnesium ion binding site [ion binding]; other site 406425012232 ParB-like nuclease domain; Region: ParB; smart00470 406425012233 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 406425012234 Initiator Replication protein; Region: Rep_3; pfam01051 406425012235 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425012236 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012237 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425012238 dimerization interface [polypeptide binding]; other site 406425012239 substrate binding pocket [chemical binding]; other site 406425012240 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 406425012241 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 406425012242 GDP-binding site [chemical binding]; other site 406425012243 ACT binding site; other site 406425012244 IMP binding site; other site 406425012245 transcriptional regulator; Provisional; Region: PRK10632 406425012246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012247 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425012248 putative effector binding pocket; other site 406425012249 dimerization interface [polypeptide binding]; other site 406425012250 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425012251 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425012252 substrate binding pocket [chemical binding]; other site 406425012253 membrane-bound complex binding site; other site 406425012254 hinge residues; other site 406425012255 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425012256 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012257 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425012258 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012260 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012261 dimerization interface [polypeptide binding]; other site 406425012262 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 406425012263 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425012264 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425012265 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425012266 Protein export membrane protein; Region: SecD_SecF; cl14618 406425012267 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425012268 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 406425012269 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425012270 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425012271 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425012272 conserved cys residue [active] 406425012273 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012274 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012275 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425012276 Zn2+ binding site [ion binding]; other site 406425012277 Mg2+ binding site [ion binding]; other site 406425012278 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 406425012279 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 406425012280 RES domain; Region: RES; pfam08808 406425012281 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 406425012282 active site 406425012283 Int/Topo IB signature motif; other site 406425012284 catalytic residues [active] 406425012285 DNA binding site [nucleotide binding] 406425012286 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 406425012287 xanthine permease; Region: pbuX; TIGR03173 406425012288 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 406425012289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012291 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012292 dimerization interface [polypeptide binding]; other site 406425012293 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 406425012294 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425012295 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 406425012296 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 406425012297 active site 406425012298 metal binding site [ion binding]; metal-binding site 406425012299 DNA binding site [nucleotide binding] 406425012300 P-loop containing region of AAA domain; Region: AAA_29; cl17516 406425012301 AAA domain; Region: AAA_23; pfam13476 406425012302 AAA domain; Region: AAA_27; pfam13514 406425012303 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 406425012304 HD domain; Region: HD_4; pfam13328 406425012305 Protein of unknown function (DUF429); Region: DUF429; pfam04250 406425012306 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425012307 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425012308 Coenzyme A binding pocket [chemical binding]; other site 406425012309 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425012310 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425012311 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012312 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 406425012313 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 406425012314 active site 406425012315 acyl-activating enzyme (AAE) consensus motif; other site 406425012316 putative CoA binding site [chemical binding]; other site 406425012317 AMP binding site [chemical binding]; other site 406425012318 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 406425012319 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 406425012320 NAD binding site [chemical binding]; other site 406425012321 homodimer interface [polypeptide binding]; other site 406425012322 homotetramer interface [polypeptide binding]; other site 406425012323 active site 406425012324 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 406425012325 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425012326 dimer interface [polypeptide binding]; other site 406425012327 active site 406425012328 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 406425012329 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425012330 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 406425012331 allantoate amidohydrolase; Reviewed; Region: PRK09290 406425012332 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425012333 active site 406425012334 metal binding site [ion binding]; metal-binding site 406425012335 dimer interface [polypeptide binding]; other site 406425012336 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 406425012337 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 406425012338 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 406425012339 homodimer interface [polypeptide binding]; other site 406425012340 active site 406425012341 FMN binding site [chemical binding]; other site 406425012342 substrate binding site [chemical binding]; other site 406425012343 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 406425012344 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 406425012345 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 406425012346 Na binding site [ion binding]; other site 406425012347 putative substrate binding site [chemical binding]; other site 406425012348 phenylhydantoinase; Validated; Region: PRK08323 406425012349 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 406425012350 tetramer interface [polypeptide binding]; other site 406425012351 active site 406425012352 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 406425012353 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 406425012354 Nucleoside recognition; Region: Gate; pfam07670 406425012355 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 406425012356 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 406425012357 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 406425012358 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 406425012359 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 406425012360 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 406425012361 active site 406425012362 catalytic motif [active] 406425012363 Zn binding site [ion binding]; other site 406425012364 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425012365 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425012366 [2Fe-2S] cluster binding site [ion binding]; other site 406425012367 methionine sulfoxide reductase A; Provisional; Region: PRK13014 406425012368 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 406425012369 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 406425012370 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 406425012371 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425012372 catalytic residues [active] 406425012373 methionine sulfoxide reductase B; Provisional; Region: PRK00222 406425012374 SelR domain; Region: SelR; pfam01641 406425012375 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012377 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425012378 putative effector binding pocket; other site 406425012379 putative dimerization interface [polypeptide binding]; other site 406425012380 short chain dehydrogenase; Provisional; Region: PRK09291 406425012381 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425012382 NADP binding site [chemical binding]; other site 406425012383 active site 406425012384 steroid binding site; other site 406425012385 Domain of unknown function (DUF336); Region: DUF336; cl01249 406425012386 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 406425012387 oligomerisation interface [polypeptide binding]; other site 406425012388 mobile loop; other site 406425012389 roof hairpin; other site 406425012390 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 406425012391 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 406425012392 ring oligomerisation interface [polypeptide binding]; other site 406425012393 ATP/Mg binding site [chemical binding]; other site 406425012394 stacking interactions; other site 406425012395 hinge regions; other site 406425012396 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 406425012397 dimanganese center [ion binding]; other site 406425012398 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 406425012399 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425012400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425012401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425012402 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425012403 Sel1-like repeats; Region: SEL1; smart00671 406425012404 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 406425012405 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012406 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012407 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012408 dimerization interface [polypeptide binding]; other site 406425012409 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425012410 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425012411 inhibitor site; inhibition site 406425012412 active site 406425012413 dimer interface [polypeptide binding]; other site 406425012414 catalytic residue [active] 406425012415 benzoate transport; Region: 2A0115; TIGR00895 406425012416 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012417 putative substrate translocation pore; other site 406425012418 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012419 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425012420 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425012421 trimer interface [polypeptide binding]; other site 406425012422 eyelet of channel; other site 406425012423 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 406425012424 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 406425012425 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425012426 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425012427 metal binding site [ion binding]; metal-binding site 406425012428 active site 406425012429 I-site; other site 406425012430 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425012431 Bacterial sugar transferase; Region: Bac_transf; pfam02397 406425012432 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425012433 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 406425012434 Low molecular weight phosphatase family; Region: LMWPc; cl00105 406425012435 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 406425012436 active site 406425012437 tyrosine kinase; Provisional; Region: PRK11519 406425012438 Chain length determinant protein; Region: Wzz; pfam02706 406425012439 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 406425012440 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 406425012441 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425012442 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 406425012443 putative ADP-binding pocket [chemical binding]; other site 406425012444 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 406425012445 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 406425012446 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 406425012447 active site 406425012448 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425012449 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 406425012450 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425012451 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425012452 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 406425012453 active site 406425012454 catalytic residues [active] 406425012455 H-NS histone family; Region: Histone_HNS; pfam00816 406425012456 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425012457 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425012458 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425012459 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425012460 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425012461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425012462 active site 406425012463 phosphorylation site [posttranslational modification] 406425012464 intermolecular recognition site; other site 406425012465 dimerization interface [polypeptide binding]; other site 406425012466 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425012467 DNA binding site [nucleotide binding] 406425012468 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425012469 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425012470 dimer interface [polypeptide binding]; other site 406425012471 phosphorylation site [posttranslational modification] 406425012472 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425012473 ATP binding site [chemical binding]; other site 406425012474 Mg2+ binding site [ion binding]; other site 406425012475 G-X-G motif; other site 406425012476 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425012477 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425012478 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012479 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 406425012480 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 406425012481 active site 406425012482 motif I; other site 406425012483 motif II; other site 406425012484 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 406425012485 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 406425012486 acyl-activating enzyme (AAE) consensus motif; other site 406425012487 putative AMP binding site [chemical binding]; other site 406425012488 putative active site [active] 406425012489 putative CoA binding site [chemical binding]; other site 406425012490 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425012491 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425012492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012493 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 406425012494 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 406425012495 Moco binding site; other site 406425012496 metal coordination site [ion binding]; other site 406425012497 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 406425012498 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 406425012499 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 406425012500 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425012501 active site 406425012502 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 406425012503 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 406425012504 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425012505 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 406425012506 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 406425012507 beta-ketothiolase; Provisional; Region: PRK09051 406425012508 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425012509 dimer interface [polypeptide binding]; other site 406425012510 active site 406425012511 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 406425012512 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 406425012513 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425012514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425012515 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425012516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012517 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425012518 NAD(P) binding site [chemical binding]; other site 406425012519 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 406425012520 Cupin domain; Region: Cupin_2; cl17218 406425012521 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425012522 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012523 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012524 EamA-like transporter family; Region: EamA; pfam00892 406425012525 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425012526 EamA-like transporter family; Region: EamA; pfam00892 406425012527 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 406425012528 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425012529 Walker A motif; other site 406425012530 ATP binding site [chemical binding]; other site 406425012531 Walker B motif; other site 406425012532 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 406425012533 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 406425012534 FHIPEP family; Region: FHIPEP; pfam00771 406425012535 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 406425012536 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 406425012537 catalytic residues [active] 406425012538 catalytic nucleophile [active] 406425012539 Presynaptic Site I dimer interface [polypeptide binding]; other site 406425012540 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 406425012541 Synaptic Flat tetramer interface [polypeptide binding]; other site 406425012542 Synaptic Site I dimer interface [polypeptide binding]; other site 406425012543 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 406425012544 DNA-binding interface [nucleotide binding]; DNA binding site 406425012545 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 406425012546 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 406425012547 catalytic residues [active] 406425012548 catalytic nucleophile [active] 406425012549 Presynaptic Site I dimer interface [polypeptide binding]; other site 406425012550 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 406425012551 Synaptic Flat tetramer interface [polypeptide binding]; other site 406425012552 Synaptic Site I dimer interface [polypeptide binding]; other site 406425012553 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 406425012554 DNA-binding interface [nucleotide binding]; DNA binding site 406425012555 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 406425012556 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425012557 MULE transposase domain; Region: MULE; pfam10551 406425012558 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 406425012559 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425012560 ligand binding site [chemical binding]; other site 406425012561 H-NS histone family; Region: Histone_HNS; pfam00816 406425012562 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425012563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425012564 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425012565 active site 406425012566 phosphorylation site [posttranslational modification] 406425012567 intermolecular recognition site; other site 406425012568 dimerization interface [polypeptide binding]; other site 406425012569 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425012570 DNA binding site [nucleotide binding] 406425012571 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 406425012572 dimer interface [polypeptide binding]; other site 406425012573 ligand binding site [chemical binding]; other site 406425012574 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425012575 PAS domain; Region: PAS_9; pfam13426 406425012576 putative active site [active] 406425012577 heme pocket [chemical binding]; other site 406425012578 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 406425012579 GAF domain; Region: GAF; pfam01590 406425012580 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425012581 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425012582 metal binding site [ion binding]; metal-binding site 406425012583 active site 406425012584 I-site; other site 406425012585 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425012586 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 406425012587 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425012588 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425012589 putative DNA binding site [nucleotide binding]; other site 406425012590 putative Zn2+ binding site [ion binding]; other site 406425012591 AsnC family; Region: AsnC_trans_reg; pfam01037 406425012592 homoserine dehydrogenase; Provisional; Region: PRK06270 406425012593 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 406425012594 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 406425012595 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425012596 NAD(P) binding site [chemical binding]; other site 406425012597 catalytic residues [active] 406425012598 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425012599 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425012600 Walker A/P-loop; other site 406425012601 ATP binding site [chemical binding]; other site 406425012602 Q-loop/lid; other site 406425012603 ABC transporter signature motif; other site 406425012604 Walker B; other site 406425012605 D-loop; other site 406425012606 H-loop/switch region; other site 406425012607 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425012608 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425012609 substrate binding pocket [chemical binding]; other site 406425012610 membrane-bound complex binding site; other site 406425012611 hinge residues; other site 406425012612 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425012613 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012614 dimer interface [polypeptide binding]; other site 406425012615 conserved gate region; other site 406425012616 putative PBP binding loops; other site 406425012617 ABC-ATPase subunit interface; other site 406425012618 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425012619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012620 dimer interface [polypeptide binding]; other site 406425012621 conserved gate region; other site 406425012622 putative PBP binding loops; other site 406425012623 ABC-ATPase subunit interface; other site 406425012624 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 406425012625 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 406425012626 homodimer interface [polypeptide binding]; other site 406425012627 substrate-cofactor binding pocket; other site 406425012628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425012629 catalytic residue [active] 406425012630 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 406425012631 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 406425012632 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425012633 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 406425012634 AsnC family; Region: AsnC_trans_reg; pfam01037 406425012635 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425012636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012637 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425012638 dimerization interface [polypeptide binding]; other site 406425012639 substrate binding pocket [chemical binding]; other site 406425012640 SnoaL-like domain; Region: SnoaL_2; pfam12680 406425012641 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425012642 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 406425012643 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 406425012644 NmrA-like family; Region: NmrA; pfam05368 406425012645 NAD(P) binding site [chemical binding]; other site 406425012646 active site lysine 406425012647 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 406425012648 Transposase; Region: DDE_Tnp_ISL3; pfam01610 406425012649 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425012650 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012651 substrate binding site [chemical binding]; other site 406425012652 oxyanion hole (OAH) forming residues; other site 406425012653 trimer interface [polypeptide binding]; other site 406425012654 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 406425012655 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 406425012656 acyl-activating enzyme (AAE) consensus motif; other site 406425012657 putative AMP binding site [chemical binding]; other site 406425012658 putative active site [active] 406425012659 putative CoA binding site [chemical binding]; other site 406425012660 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425012661 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425012662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012663 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 406425012664 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425012665 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 406425012666 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425012667 conserved cys residue [active] 406425012668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425012671 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425012672 dimerization interface [polypeptide binding]; other site 406425012673 substrate binding pocket [chemical binding]; other site 406425012674 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 406425012675 classical (c) SDRs; Region: SDR_c; cd05233 406425012676 NAD(P) binding site [chemical binding]; other site 406425012677 active site 406425012678 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 406425012679 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 406425012680 GTP cyclohydrolase I; Provisional; Region: PLN03044 406425012681 active site 406425012682 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 406425012683 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425012684 FMN binding site [chemical binding]; other site 406425012685 substrate binding site [chemical binding]; other site 406425012686 putative catalytic residue [active] 406425012687 beta-ketothiolase; Provisional; Region: PRK09051 406425012688 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425012689 dimer interface [polypeptide binding]; other site 406425012690 active site 406425012691 acyl-CoA synthetase; Provisional; Region: PRK12582 406425012692 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 406425012693 acyl-activating enzyme (AAE) consensus motif; other site 406425012694 putative AMP binding site [chemical binding]; other site 406425012695 putative active site [active] 406425012696 putative CoA binding site [chemical binding]; other site 406425012697 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425012698 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 406425012699 FAD binding site [chemical binding]; other site 406425012700 substrate binding site [chemical binding]; other site 406425012701 catalytic base [active] 406425012702 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425012703 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425012704 active site 406425012705 enoyl-CoA hydratase; Provisional; Region: PRK06190 406425012706 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012707 substrate binding site [chemical binding]; other site 406425012708 oxyanion hole (OAH) forming residues; other site 406425012709 trimer interface [polypeptide binding]; other site 406425012710 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425012711 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012712 substrate binding site [chemical binding]; other site 406425012713 oxyanion hole (OAH) forming residues; other site 406425012714 trimer interface [polypeptide binding]; other site 406425012715 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 406425012716 classical (c) SDRs; Region: SDR_c; cd05233 406425012717 NAD(P) binding site [chemical binding]; other site 406425012718 active site 406425012719 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 406425012720 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425012721 FMN binding site [chemical binding]; other site 406425012722 substrate binding site [chemical binding]; other site 406425012723 putative catalytic residue [active] 406425012724 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425012725 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425012726 DNA binding residues [nucleotide binding] 406425012727 dimerization interface [polypeptide binding]; other site 406425012728 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012729 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 406425012730 substrate binding site [chemical binding]; other site 406425012731 oxyanion hole (OAH) forming residues; other site 406425012732 trimer interface [polypeptide binding]; other site 406425012733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012734 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 406425012735 NAD(P) binding site [chemical binding]; other site 406425012736 active site 406425012737 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425012738 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425012739 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012740 active site 2 [active] 406425012741 active site 1 [active] 406425012742 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425012743 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425012744 active site 406425012745 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 406425012746 DUF35 OB-fold domain; Region: DUF35; pfam01796 406425012747 thiolase; Provisional; Region: PRK06158 406425012748 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 406425012749 active site 406425012750 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425012751 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012752 substrate binding site [chemical binding]; other site 406425012753 oxyanion hole (OAH) forming residues; other site 406425012754 trimer interface [polypeptide binding]; other site 406425012755 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425012756 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012757 substrate binding site [chemical binding]; other site 406425012758 oxyanion hole (OAH) forming residues; other site 406425012759 trimer interface [polypeptide binding]; other site 406425012760 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425012761 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012762 substrate binding site [chemical binding]; other site 406425012763 oxyanion hole (OAH) forming residues; other site 406425012764 trimer interface [polypeptide binding]; other site 406425012765 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 406425012766 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 406425012767 NAD(P) binding site [chemical binding]; other site 406425012768 substrate binding site [chemical binding]; other site 406425012769 homotetramer interface [polypeptide binding]; other site 406425012770 active site 406425012771 homodimer interface [polypeptide binding]; other site 406425012772 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425012773 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425012774 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425012775 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 406425012776 FAD binding site [chemical binding]; other site 406425012777 substrate binding site [chemical binding]; other site 406425012778 catalytic base [active] 406425012779 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425012780 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425012781 active site 406425012782 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425012783 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425012784 active site 406425012785 enoyl-CoA hydratase; Provisional; Region: PRK06210 406425012786 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012787 substrate binding site [chemical binding]; other site 406425012788 oxyanion hole (OAH) forming residues; other site 406425012789 trimer interface [polypeptide binding]; other site 406425012790 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012791 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012792 active site 2 [active] 406425012793 active site 1 [active] 406425012794 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425012795 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 406425012796 FAD binding site [chemical binding]; other site 406425012797 substrate binding site [chemical binding]; other site 406425012798 catalytic base [active] 406425012799 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425012800 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425012801 active site 406425012802 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 406425012803 Cytochrome P450; Region: p450; cl12078 406425012804 Helix-turn-helix domain; Region: HTH_28; pfam13518 406425012805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 406425012806 Integrase core domain; Region: rve; pfam00665 406425012807 Integrase core domain; Region: rve_3; pfam13683 406425012808 Transposase; Region: HTH_Tnp_1; pfam01527 406425012809 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425012810 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425012811 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 406425012812 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 406425012813 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 406425012814 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 406425012815 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 406425012816 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425012817 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 406425012818 NADP binding site [chemical binding]; other site 406425012819 homodimer interface [polypeptide binding]; other site 406425012820 active site 406425012821 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 406425012822 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425012823 putative NAD(P) binding site [chemical binding]; other site 406425012824 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 406425012825 Ligand binding site [chemical binding]; other site 406425012826 Electron transfer flavoprotein domain; Region: ETF; pfam01012 406425012827 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 406425012828 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 406425012829 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 406425012830 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425012831 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425012832 [2Fe-2S] cluster binding site [ion binding]; other site 406425012833 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 406425012834 putative alpha subunit interface [polypeptide binding]; other site 406425012835 putative active site [active] 406425012836 putative substrate binding site [chemical binding]; other site 406425012837 Fe binding site [ion binding]; other site 406425012838 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 406425012839 Predicted oxidoreductase [General function prediction only]; Region: COG3573 406425012840 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 406425012841 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 406425012842 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 406425012843 tetramer interface [polypeptide binding]; other site 406425012844 TPP-binding site [chemical binding]; other site 406425012845 heterodimer interface [polypeptide binding]; other site 406425012846 phosphorylation loop region [posttranslational modification] 406425012847 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 406425012848 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 406425012849 alpha subunit interface [polypeptide binding]; other site 406425012850 TPP binding site [chemical binding]; other site 406425012851 heterodimer interface [polypeptide binding]; other site 406425012852 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425012853 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425012854 E3 interaction surface; other site 406425012855 lipoyl attachment site [posttranslational modification]; other site 406425012856 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 406425012857 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425012858 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425012859 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 406425012860 acyl-activating enzyme (AAE) consensus motif; other site 406425012861 acyl-activating enzyme (AAE) consensus motif; other site 406425012862 putative AMP binding site [chemical binding]; other site 406425012863 putative active site [active] 406425012864 putative CoA binding site [chemical binding]; other site 406425012865 enoyl-CoA hydratase; Provisional; Region: PRK12478 406425012866 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012867 substrate binding site [chemical binding]; other site 406425012868 oxyanion hole (OAH) forming residues; other site 406425012869 trimer interface [polypeptide binding]; other site 406425012870 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425012871 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012872 substrate binding site [chemical binding]; other site 406425012873 oxyanion hole (OAH) forming residues; other site 406425012874 trimer interface [polypeptide binding]; other site 406425012875 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425012876 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425012877 active site 406425012878 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425012879 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425012880 active site 406425012881 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 406425012882 classical (c) SDR, subgroup 12; Region: SDR_c12; cd08944 406425012883 putative NAD(P) binding site [chemical binding]; other site 406425012884 homodimer interface [polypeptide binding]; other site 406425012885 active site 406425012886 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 406425012887 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 406425012888 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012889 NAD(P) binding site [chemical binding]; other site 406425012890 active site 406425012891 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 406425012892 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425012893 catalytic loop [active] 406425012894 iron binding site [ion binding]; other site 406425012895 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 406425012896 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425012897 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425012898 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425012899 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425012900 Cytochrome P450; Region: p450; cl12078 406425012901 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 406425012902 choline dehydrogenase; Validated; Region: PRK02106 406425012903 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425012904 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425012905 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012906 substrate binding site [chemical binding]; other site 406425012907 oxyanion hole (OAH) forming residues; other site 406425012908 trimer interface [polypeptide binding]; other site 406425012909 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 406425012910 Beta-lactamase; Region: Beta-lactamase; pfam00144 406425012911 Uncharacterized conserved protein [Function unknown]; Region: COG3777 406425012912 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012913 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012914 active site 2 [active] 406425012915 active site 1 [active] 406425012916 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 406425012917 short chain dehydrogenase; Provisional; Region: PRK07791 406425012918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012919 NAD(P) binding site [chemical binding]; other site 406425012920 active site 406425012921 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 406425012922 Cytochrome P450; Region: p450; cl12078 406425012923 Rubredoxin [Energy production and conversion]; Region: COG1773 406425012924 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 406425012925 iron binding site [ion binding]; other site 406425012926 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 406425012927 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425012928 dimer interface [polypeptide binding]; other site 406425012929 active site 406425012930 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 406425012931 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 406425012932 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 406425012933 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425012934 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425012935 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 406425012936 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425012937 FMN binding site [chemical binding]; other site 406425012938 substrate binding site [chemical binding]; other site 406425012939 putative catalytic residue [active] 406425012940 enoyl-CoA hydratase; Provisional; Region: PRK05862 406425012941 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012942 substrate binding site [chemical binding]; other site 406425012943 oxyanion hole (OAH) forming residues; other site 406425012944 trimer interface [polypeptide binding]; other site 406425012945 enoyl-CoA hydratase; Provisional; Region: PRK06563 406425012946 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012947 substrate binding site [chemical binding]; other site 406425012948 oxyanion hole (OAH) forming residues; other site 406425012949 trimer interface [polypeptide binding]; other site 406425012950 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425012951 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425012952 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425012953 classical (c) SDRs; Region: SDR_c; cd05233 406425012954 NAD(P) binding site [chemical binding]; other site 406425012955 active site 406425012956 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425012957 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 406425012958 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425012959 Amidohydrolase; Region: Amidohydro_2; pfam04909 406425012960 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425012961 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012962 substrate binding site [chemical binding]; other site 406425012963 oxyanion hole (OAH) forming residues; other site 406425012964 trimer interface [polypeptide binding]; other site 406425012965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012966 NAD(P) binding site [chemical binding]; other site 406425012967 active site 406425012968 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 406425012969 putative active site [active] 406425012970 putative FMN binding site [chemical binding]; other site 406425012971 putative substrate binding site [chemical binding]; other site 406425012972 putative catalytic residue [active] 406425012973 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425012974 CoenzymeA binding site [chemical binding]; other site 406425012975 subunit interaction site [polypeptide binding]; other site 406425012976 PHB binding site; other site 406425012977 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425012978 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425012979 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 406425012980 short chain dehydrogenase; Provisional; Region: PRK06180 406425012981 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425012982 NADP binding site [chemical binding]; other site 406425012983 active site 406425012984 steroid binding site; other site 406425012985 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 406425012986 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 406425012987 putative catalytic cysteine [active] 406425012988 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425012989 MarR family; Region: MarR_2; pfam12802 406425012990 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425012991 classical (c) SDRs; Region: SDR_c; cd05233 406425012992 NAD(P) binding site [chemical binding]; other site 406425012993 active site 406425012994 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 406425012995 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425012996 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 406425012997 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 406425012998 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 406425012999 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425013000 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 406425013001 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425013002 non-specific DNA binding site [nucleotide binding]; other site 406425013003 salt bridge; other site 406425013004 sequence-specific DNA binding site [nucleotide binding]; other site 406425013005 Phage integrase protein; Region: DUF3701; pfam12482 406425013006 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425013007 active site 406425013008 DNA binding site [nucleotide binding] 406425013009 Int/Topo IB signature motif; other site 406425013010 H-NS histone family; Region: Histone_HNS; pfam00816 406425013011 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425013012 WYL domain; Region: WYL; pfam13280 406425013013 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 406425013014 active site 406425013015 NTP binding site [chemical binding]; other site 406425013016 metal binding triad [ion binding]; metal-binding site 406425013017 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 406425013018 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 406425013019 ATP binding site [chemical binding]; other site 406425013020 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 406425013021 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 406425013022 Transposase; Region: HTH_Tnp_1; pfam01527 406425013023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425013024 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 406425013025 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 406425013026 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 406425013027 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 406425013028 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 406425013029 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 406425013030 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 406425013031 AAA domain; Region: AAA_22; pfam13401 406425013032 AAA ATPase domain; Region: AAA_16; pfam13191 406425013033 Integrase core domain; Region: rve; pfam00665 406425013034 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 406425013035 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 406425013036 intersubunit interface [polypeptide binding]; other site 406425013037 active site 406425013038 catalytic residue [active] 406425013039 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 406425013040 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 406425013041 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 406425013042 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 406425013043 active site 406425013044 catalytic residues [active] 406425013045 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 406425013046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013047 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013048 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425013049 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 406425013050 substrate binding site [chemical binding]; other site 406425013051 dimer interface [polypeptide binding]; other site 406425013052 ATP binding site [chemical binding]; other site 406425013053 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425013054 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425013055 inhibitor site; inhibition site 406425013056 active site 406425013057 dimer interface [polypeptide binding]; other site 406425013058 catalytic residue [active] 406425013059 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 406425013060 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 406425013061 putative active site [active] 406425013062 metal binding site [ion binding]; metal-binding site 406425013063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 406425013064 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 406425013065 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 406425013066 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 406425013067 Na binding site [ion binding]; other site 406425013068 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 406425013069 BNR repeat-like domain; Region: BNR_2; pfam13088 406425013070 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 406425013071 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 406425013072 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 406425013073 classical (c) SDRs; Region: SDR_c; cd05233 406425013074 NAD(P) binding site [chemical binding]; other site 406425013075 active site 406425013076 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 406425013077 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 406425013078 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013079 putative substrate translocation pore; other site 406425013080 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425013081 sequence-specific DNA binding site [nucleotide binding]; other site 406425013082 salt bridge; other site 406425013083 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425013084 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013085 dimer interface [polypeptide binding]; other site 406425013086 putative PBP binding loops; other site 406425013087 ABC-ATPase subunit interface; other site 406425013088 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425013089 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013090 dimer interface [polypeptide binding]; other site 406425013091 conserved gate region; other site 406425013092 putative PBP binding loops; other site 406425013093 ABC-ATPase subunit interface; other site 406425013094 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 406425013095 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 406425013096 Walker A/P-loop; other site 406425013097 ATP binding site [chemical binding]; other site 406425013098 Q-loop/lid; other site 406425013099 ABC transporter signature motif; other site 406425013100 Walker B; other site 406425013101 D-loop; other site 406425013102 H-loop/switch region; other site 406425013103 TOBE domain; Region: TOBE_2; pfam08402 406425013104 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 406425013105 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 406425013106 active site 406425013107 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425013108 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425013109 DNA binding site [nucleotide binding] 406425013110 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 406425013111 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 406425013112 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425013113 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 406425013114 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425013115 PYR/PP interface [polypeptide binding]; other site 406425013116 dimer interface [polypeptide binding]; other site 406425013117 TPP binding site [chemical binding]; other site 406425013118 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425013119 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 406425013120 TPP-binding site [chemical binding]; other site 406425013121 Trehalose utilisation; Region: ThuA; pfam06283 406425013122 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 406425013123 histidinol dehydrogenase; Region: hisD; TIGR00069 406425013124 NAD binding site [chemical binding]; other site 406425013125 dimerization interface [polypeptide binding]; other site 406425013126 product binding site; other site 406425013127 substrate binding site [chemical binding]; other site 406425013128 zinc binding site [ion binding]; other site 406425013129 catalytic residues [active] 406425013130 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425013131 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425013132 trimer interface [polypeptide binding]; other site 406425013133 eyelet of channel; other site 406425013134 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425013135 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 406425013136 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 406425013137 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 406425013138 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 406425013139 YCII-related domain; Region: YCII; cl00999 406425013140 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 406425013141 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425013142 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425013143 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425013144 choline dehydrogenase; Validated; Region: PRK02106 406425013145 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425013146 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425013147 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 406425013148 conserved cys residue [active] 406425013149 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013150 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425013151 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 406425013152 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 406425013153 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 406425013154 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425013155 This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD). PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation...; Region: Rieske_RO_Alpha_PrnD; cd03537 406425013156 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425013157 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 406425013158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425013159 active site 406425013160 phosphorylation site [posttranslational modification] 406425013161 intermolecular recognition site; other site 406425013162 dimerization interface [polypeptide binding]; other site 406425013163 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425013164 DNA binding site [nucleotide binding] 406425013165 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 406425013166 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425013167 dimer interface [polypeptide binding]; other site 406425013168 phosphorylation site [posttranslational modification] 406425013169 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425013170 ATP binding site [chemical binding]; other site 406425013171 Mg2+ binding site [ion binding]; other site 406425013172 G-X-G motif; other site 406425013173 Colicin-E5 Imm protein; Region: ImmE5; pfam11480 406425013174 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425013175 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425013176 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425013177 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425013178 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425013179 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 406425013180 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 406425013181 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425013182 L-asparagine permease; Provisional; Region: PRK15049 406425013183 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425013184 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425013185 substrate binding pocket [chemical binding]; other site 406425013186 membrane-bound complex binding site; other site 406425013187 hinge residues; other site 406425013188 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013189 dimer interface [polypeptide binding]; other site 406425013190 conserved gate region; other site 406425013191 putative PBP binding loops; other site 406425013192 ABC-ATPase subunit interface; other site 406425013193 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425013194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013195 dimer interface [polypeptide binding]; other site 406425013196 conserved gate region; other site 406425013197 putative PBP binding loops; other site 406425013198 ABC-ATPase subunit interface; other site 406425013199 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425013200 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425013201 Walker A/P-loop; other site 406425013202 ATP binding site [chemical binding]; other site 406425013203 Q-loop/lid; other site 406425013204 ABC transporter signature motif; other site 406425013205 Walker B; other site 406425013206 D-loop; other site 406425013207 H-loop/switch region; other site 406425013208 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425013209 hypothetical protein; Provisional; Region: PRK07236 406425013210 FAD binding domain; Region: FAD_binding_3; pfam01494 406425013211 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425013212 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 406425013213 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 406425013214 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 406425013215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013216 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013217 dimerization interface [polypeptide binding]; other site 406425013218 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 406425013219 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 406425013220 Isochorismatase family; Region: Isochorismatase; pfam00857 406425013221 catalytic triad [active] 406425013222 dimer interface [polypeptide binding]; other site 406425013223 conserved cis-peptide bond; other site 406425013224 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 406425013225 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 406425013226 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 406425013227 active site 406425013228 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425013229 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 406425013230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013232 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425013233 putative effector binding pocket; other site 406425013234 dimerization interface [polypeptide binding]; other site 406425013235 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 406425013236 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425013237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013238 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013239 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425013240 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425013241 DNA binding site [nucleotide binding] 406425013242 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425013243 Predicted ATPase [General function prediction only]; Region: COG3903 406425013244 Walker A motif; other site 406425013245 ATP binding site [chemical binding]; other site 406425013246 Walker B motif; other site 406425013247 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 406425013248 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 406425013249 active site 406425013250 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425013251 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425013252 FMN binding site [chemical binding]; other site 406425013253 active site 406425013254 substrate binding site [chemical binding]; other site 406425013255 catalytic residue [active] 406425013256 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425013257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013258 putative substrate translocation pore; other site 406425013259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013261 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425013262 putative effector binding pocket; other site 406425013263 putative dimerization interface [polypeptide binding]; other site 406425013264 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425013265 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425013266 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 406425013267 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425013268 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425013269 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425013270 catalytic loop [active] 406425013271 iron binding site [ion binding]; other site 406425013272 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425013273 Cytochrome c; Region: Cytochrom_C; pfam00034 406425013274 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425013275 Cytochrome c; Region: Cytochrom_C; pfam00034 406425013276 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; pfam02148 406425013277 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 406425013278 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425013279 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425013280 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425013281 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 406425013282 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425013283 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425013284 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425013285 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013286 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425013287 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425013288 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425013289 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 406425013290 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425013291 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425013292 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425013293 DNA binding site [nucleotide binding] 406425013294 Predicted ATPase [General function prediction only]; Region: COG3903 406425013295 Predicted membrane protein [Function unknown]; Region: COG2259 406425013296 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425013297 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 406425013298 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425013299 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425013300 ligand binding site [chemical binding]; other site 406425013301 flexible hinge region; other site 406425013302 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 406425013303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013304 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013305 dimerization interface [polypeptide binding]; other site 406425013306 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013307 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425013308 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013309 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 406425013310 active site 406425013311 catalytic residues [active] 406425013312 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 406425013313 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425013314 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425013315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013316 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013317 short chain dehydrogenase; Provisional; Region: PRK06180 406425013318 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425013319 NADP binding site [chemical binding]; other site 406425013320 active site 406425013321 steroid binding site; other site 406425013322 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425013323 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425013324 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425013325 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425013326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013327 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013328 dimerization interface [polypeptide binding]; other site 406425013329 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425013330 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 406425013331 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425013332 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013333 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425013334 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425013335 Ligand Binding Site [chemical binding]; other site 406425013336 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 406425013337 Phage integrase protein; Region: DUF3701; pfam12482 406425013338 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 406425013339 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 406425013340 Int/Topo IB signature motif; other site 406425013341 TfoX N-terminal domain; Region: TfoX_N; pfam04993 406425013342 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425013343 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425013344 DNA-binding site [nucleotide binding]; DNA binding site 406425013345 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425013346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013347 homodimer interface [polypeptide binding]; other site 406425013348 catalytic residue [active] 406425013349 hypothetical protein; Provisional; Region: PRK06126 406425013350 hypothetical protein; Provisional; Region: PRK07236 406425013351 tetracycline repressor protein TetR; Provisional; Region: PRK13756 406425013352 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425013353 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 406425013354 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 406425013355 MoaE interaction surface [polypeptide binding]; other site 406425013356 MoeB interaction surface [polypeptide binding]; other site 406425013357 thiocarboxylated glycine; other site 406425013358 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 406425013359 MoaE homodimer interface [polypeptide binding]; other site 406425013360 MoaD interaction [polypeptide binding]; other site 406425013361 active site residues [active] 406425013362 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 406425013363 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425013364 FeS/SAM binding site; other site 406425013365 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 406425013366 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 406425013367 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 406425013368 dimer interface [polypeptide binding]; other site 406425013369 putative functional site; other site 406425013370 putative MPT binding site; other site 406425013371 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 406425013372 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 406425013373 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 406425013374 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 406425013375 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 406425013376 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 406425013377 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425013378 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 406425013379 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425013380 Walker A motif; other site 406425013381 ATP binding site [chemical binding]; other site 406425013382 Walker B motif; other site 406425013383 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 406425013384 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 406425013385 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425013386 FeS/SAM binding site; other site 406425013387 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425013388 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 406425013389 active site 406425013390 ATP binding site [chemical binding]; other site 406425013391 substrate binding site [chemical binding]; other site 406425013392 activation loop (A-loop); other site 406425013393 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 406425013394 AAA domain; Region: AAA_11; pfam13086 406425013395 Part of AAA domain; Region: AAA_19; pfam13245 406425013396 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 406425013397 AAA domain; Region: AAA_12; pfam13087 406425013398 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 406425013399 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 406425013400 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 406425013401 active site 406425013402 HIGH motif; other site 406425013403 dimer interface [polypeptide binding]; other site 406425013404 KMSKS motif; other site 406425013405 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 406425013406 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425013407 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 406425013408 homotrimer interaction site [polypeptide binding]; other site 406425013409 putative active site [active] 406425013410 Uncharacterized conserved protein [Function unknown]; Region: COG3342 406425013411 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 406425013412 acetylornithine deacetylase; Provisional; Region: PRK07522 406425013413 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 406425013414 metal binding site [ion binding]; metal-binding site 406425013415 putative dimer interface [polypeptide binding]; other site 406425013416 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013418 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 406425013419 putative substrate binding pocket [chemical binding]; other site 406425013420 dimerization interface [polypeptide binding]; other site 406425013421 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425013422 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 406425013423 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 406425013424 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 406425013425 putative molybdopterin cofactor binding site [chemical binding]; other site 406425013426 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 406425013427 putative molybdopterin cofactor binding site; other site 406425013428 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 406425013429 Clp amino terminal domain; Region: Clp_N; pfam02861 406425013430 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425013431 Walker A motif; other site 406425013432 ATP binding site [chemical binding]; other site 406425013433 Walker B motif; other site 406425013434 arginine finger; other site 406425013435 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425013436 Walker A motif; other site 406425013437 ATP binding site [chemical binding]; other site 406425013438 Walker B motif; other site 406425013439 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 406425013440 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 406425013441 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 406425013442 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425013443 MULE transposase domain; Region: MULE; pfam10551 406425013444 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425013445 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 406425013446 FCD domain; Region: FCD; pfam07729 406425013447 short chain dehydrogenase; Provisional; Region: PRK12829 406425013448 classical (c) SDRs; Region: SDR_c; cd05233 406425013449 NAD(P) binding site [chemical binding]; other site 406425013450 active site 406425013451 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 406425013452 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425013453 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013454 putative substrate translocation pore; other site 406425013455 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 406425013456 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 406425013457 putative ion selectivity filter; other site 406425013458 putative pore gating glutamate residue; other site 406425013459 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 406425013460 cytosine deaminase; Provisional; Region: PRK09230 406425013461 active site 406425013462 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425013463 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425013464 trimer interface [polypeptide binding]; other site 406425013465 eyelet of channel; other site 406425013466 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425013467 transcriptional regulator; Provisional; Region: PRK10632 406425013468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013469 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425013470 putative effector binding pocket; other site 406425013471 dimerization interface [polypeptide binding]; other site 406425013472 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425013473 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 406425013474 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 406425013475 homodimer interface [polypeptide binding]; other site 406425013476 homotetramer interface [polypeptide binding]; other site 406425013477 active site pocket [active] 406425013478 cleavage site 406425013479 amino acid transporter; Region: 2A0306; TIGR00909 406425013480 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425013481 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425013482 DNA binding residues [nucleotide binding] 406425013483 dimerization interface [polypeptide binding]; other site 406425013484 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 406425013485 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 406425013486 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 406425013487 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 406425013488 tetrameric interface [polypeptide binding]; other site 406425013489 NAD binding site [chemical binding]; other site 406425013490 catalytic residues [active] 406425013491 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 406425013492 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425013493 inhibitor-cofactor binding pocket; inhibition site 406425013494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013495 catalytic residue [active] 406425013496 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013498 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425013499 dimerization interface [polypeptide binding]; other site 406425013500 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425013501 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013502 putative substrate translocation pore; other site 406425013503 MarR family; Region: MarR_2; pfam12802 406425013504 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 406425013505 Epoxide hydrolase N terminus; Region: EHN; pfam06441 406425013506 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425013507 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425013508 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425013509 conserved cys residue [active] 406425013510 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013511 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 406425013512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013513 NAD(P) binding site [chemical binding]; other site 406425013514 active site 406425013515 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013516 putative substrate translocation pore; other site 406425013517 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425013518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013519 putative substrate translocation pore; other site 406425013520 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 406425013521 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425013522 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 406425013523 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425013524 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425013525 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425013526 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 406425013527 putative DNA binding site [nucleotide binding]; other site 406425013528 putative Zn2+ binding site [ion binding]; other site 406425013529 AsnC family; Region: AsnC_trans_reg; pfam01037 406425013530 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425013531 voltage-gated potassium channel; Provisional; Region: PRK10537 406425013532 Ion channel; Region: Ion_trans_2; pfam07885 406425013533 TrkA-N domain; Region: TrkA_N; pfam02254 406425013534 Predicted membrane protein [Function unknown]; Region: COG1238 406425013535 Cache domain; Region: Cache_1; pfam02743 406425013536 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425013537 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425013538 dimer interface [polypeptide binding]; other site 406425013539 putative CheW interface [polypeptide binding]; other site 406425013540 acyl-CoA synthetase; Validated; Region: PRK08162 406425013541 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 406425013542 acyl-activating enzyme (AAE) consensus motif; other site 406425013543 putative active site [active] 406425013544 AMP binding site [chemical binding]; other site 406425013545 putative CoA binding site [chemical binding]; other site 406425013546 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425013547 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425013548 ligand binding site [chemical binding]; other site 406425013549 flexible hinge region; other site 406425013550 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 406425013551 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425013552 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425013553 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425013554 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425013555 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 406425013556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425013557 active site 406425013558 phosphorylation site [posttranslational modification] 406425013559 intermolecular recognition site; other site 406425013560 dimerization interface [polypeptide binding]; other site 406425013561 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425013562 DNA binding site [nucleotide binding] 406425013563 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 406425013564 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425013565 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425013566 dimer interface [polypeptide binding]; other site 406425013567 phosphorylation site [posttranslational modification] 406425013568 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425013569 ATP binding site [chemical binding]; other site 406425013570 Mg2+ binding site [ion binding]; other site 406425013571 G-X-G motif; other site 406425013572 Cupin domain; Region: Cupin_2; cl17218 406425013573 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425013574 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013575 amidase; Provisional; Region: PRK07235 406425013576 amidase; Provisional; Region: PRK07487 406425013577 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 406425013578 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 406425013579 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 406425013580 putative TOMM peptide; Region: TOMM_nitrile_2; TIGR04351 406425013581 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 406425013582 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 406425013583 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 406425013584 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 406425013585 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 406425013586 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 406425013587 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425013588 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425013589 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425013590 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013592 Inclusion body protein; Region: PixA; pfam12306 406425013593 Inclusion body protein; Region: PixA; pfam12306 406425013594 Inclusion body protein; Region: PixA; pfam12306 406425013595 short chain dehydrogenase; Provisional; Region: PRK06523 406425013596 classical (c) SDRs; Region: SDR_c; cd05233 406425013597 NAD(P) binding site [chemical binding]; other site 406425013598 active site 406425013599 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 406425013600 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 406425013601 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425013602 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 406425013603 active site 406425013604 FMN binding site [chemical binding]; other site 406425013605 substrate binding site [chemical binding]; other site 406425013606 homotetramer interface [polypeptide binding]; other site 406425013607 catalytic residue [active] 406425013608 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 406425013609 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 406425013610 potential catalytic triad [active] 406425013611 conserved cys residue [active] 406425013612 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425013613 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425013614 DNA binding site [nucleotide binding] 406425013615 domain linker motif; other site 406425013616 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 406425013617 ligand binding site [chemical binding]; other site 406425013618 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 406425013619 active site 406425013620 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 406425013621 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 406425013622 substrate binding [chemical binding]; other site 406425013623 active site 406425013624 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 406425013625 short chain dehydrogenase; Provisional; Region: PRK06500 406425013626 classical (c) SDRs; Region: SDR_c; cd05233 406425013627 NAD(P) binding site [chemical binding]; other site 406425013628 active site 406425013629 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 406425013630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013631 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013632 dimerization interface [polypeptide binding]; other site 406425013633 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425013634 DNA-binding site [nucleotide binding]; DNA binding site 406425013635 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425013636 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425013637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013638 homodimer interface [polypeptide binding]; other site 406425013639 catalytic residue [active] 406425013640 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 406425013641 Uncharacterized conserved protein [Function unknown]; Region: COG2128 406425013642 Cupin domain; Region: Cupin_2; pfam07883 406425013643 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425013644 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425013645 trimer interface [polypeptide binding]; other site 406425013646 eyelet of channel; other site 406425013647 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 406425013648 active site lid residues [active] 406425013649 substrate binding pocket [chemical binding]; other site 406425013650 catalytic residues [active] 406425013651 substrate-Mg2+ binding site; other site 406425013652 aspartate-rich region 1; other site 406425013653 aspartate-rich region 2; other site 406425013654 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 406425013655 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 406425013656 putative active site [active] 406425013657 catalytic site [active] 406425013658 putative metal binding site [ion binding]; other site 406425013659 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 406425013660 active site residue [active] 406425013661 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 406425013662 active site residue [active] 406425013663 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 406425013664 active site residue [active] 406425013665 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 406425013666 active site residue [active] 406425013667 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 406425013668 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013669 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013670 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425013671 dimerization interface [polypeptide binding]; other site 406425013672 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425013673 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425013674 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425013675 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425013676 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 406425013677 dimer interface [polypeptide binding]; other site 406425013678 active site 406425013679 non-prolyl cis peptide bond; other site 406425013680 insertion regions; other site 406425013681 hypothetical protein; Provisional; Region: PRK06208 406425013682 active site 406425013683 intersubunit interface [polypeptide binding]; other site 406425013684 Zn2+ binding site [ion binding]; other site 406425013685 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 406425013686 NMT1/THI5 like; Region: NMT1; pfam09084 406425013687 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425013688 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013689 dimer interface [polypeptide binding]; other site 406425013690 conserved gate region; other site 406425013691 putative PBP binding loops; other site 406425013692 ABC-ATPase subunit interface; other site 406425013693 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425013694 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425013695 Walker A/P-loop; other site 406425013696 ATP binding site [chemical binding]; other site 406425013697 Q-loop/lid; other site 406425013698 ABC transporter signature motif; other site 406425013699 Walker B; other site 406425013700 D-loop; other site 406425013701 H-loop/switch region; other site 406425013702 Cytochrome c; Region: Cytochrom_C; pfam00034 406425013703 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 406425013704 membrane-bound complex binding site; other site 406425013705 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 406425013706 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 406425013707 MOSC domain; Region: MOSC; pfam03473 406425013708 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425013709 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425013710 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425013711 dimer interface [polypeptide binding]; other site 406425013712 phosphorylation site [posttranslational modification] 406425013713 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425013714 ATP binding site [chemical binding]; other site 406425013715 Mg2+ binding site [ion binding]; other site 406425013716 G-X-G motif; other site 406425013717 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 406425013718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425013719 active site 406425013720 phosphorylation site [posttranslational modification] 406425013721 intermolecular recognition site; other site 406425013722 dimerization interface [polypeptide binding]; other site 406425013723 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425013724 DNA binding site [nucleotide binding] 406425013725 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 406425013726 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013727 putative substrate translocation pore; other site 406425013728 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425013729 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425013730 DNA-binding site [nucleotide binding]; DNA binding site 406425013731 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425013732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013733 homodimer interface [polypeptide binding]; other site 406425013734 catalytic residue [active] 406425013735 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 406425013736 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425013737 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 406425013738 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013739 dimer interface [polypeptide binding]; other site 406425013740 conserved gate region; other site 406425013741 ABC-ATPase subunit interface; other site 406425013742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013743 dimer interface [polypeptide binding]; other site 406425013744 conserved gate region; other site 406425013745 putative PBP binding loops; other site 406425013746 ABC-ATPase subunit interface; other site 406425013747 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 406425013748 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 406425013749 Walker A/P-loop; other site 406425013750 ATP binding site [chemical binding]; other site 406425013751 Q-loop/lid; other site 406425013752 ABC transporter signature motif; other site 406425013753 Walker B; other site 406425013754 D-loop; other site 406425013755 H-loop/switch region; other site 406425013756 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425013757 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425013758 trimer interface [polypeptide binding]; other site 406425013759 eyelet of channel; other site 406425013760 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425013761 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425013762 NAD(P) binding site [chemical binding]; other site 406425013763 Cupin domain; Region: Cupin_2; cl17218 406425013764 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425013765 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013766 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 406425013767 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425013768 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 406425013769 putative substrate binding pocket [chemical binding]; other site 406425013770 trimer interface [polypeptide binding]; other site 406425013771 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 406425013772 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 406425013773 putative active site [active] 406425013774 putative metal binding site [ion binding]; other site 406425013775 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 406425013776 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 406425013777 NAD binding site [chemical binding]; other site 406425013778 catalytic residues [active] 406425013779 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 406425013780 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425013781 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425013782 MarR family; Region: MarR_2; cl17246 406425013783 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425013784 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 406425013785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013786 NAD(P) binding site [chemical binding]; other site 406425013787 active site 406425013788 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 406425013789 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 406425013790 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 406425013791 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 406425013792 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 406425013793 putative cation:proton antiport protein; Provisional; Region: PRK10669 406425013794 TrkA-N domain; Region: TrkA_N; pfam02254 406425013795 Cytochrome c; Region: Cytochrom_C; pfam00034 406425013796 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425013797 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425013798 Cytochrome c; Region: Cytochrom_C; pfam00034 406425013799 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 406425013800 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425013801 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 406425013802 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 406425013803 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 406425013804 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 406425013805 hexamer interface [polypeptide binding]; other site 406425013806 ligand binding site [chemical binding]; other site 406425013807 putative active site [active] 406425013808 NAD(P) binding site [chemical binding]; other site 406425013809 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 406425013810 hypothetical protein; Provisional; Region: PRK08609 406425013811 active site 406425013812 primer binding site [nucleotide binding]; other site 406425013813 NTP binding site [chemical binding]; other site 406425013814 metal binding triad [ion binding]; metal-binding site 406425013815 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 406425013816 active site 406425013817 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 406425013818 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 406425013819 Bacterial sugar transferase; Region: Bac_transf; pfam02397 406425013820 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425013821 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 406425013822 non-specific DNA interactions [nucleotide binding]; other site 406425013823 DNA binding site [nucleotide binding] 406425013824 sequence specific DNA binding site [nucleotide binding]; other site 406425013825 putative cAMP binding site [chemical binding]; other site 406425013826 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425013827 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425013828 ligand binding site [chemical binding]; other site 406425013829 flexible hinge region; other site 406425013830 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 406425013831 acyl carrier protein; Provisional; Region: PRK07081 406425013832 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425013833 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425013834 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425013835 active site 406425013836 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 406425013837 dimer interface [polypeptide binding]; other site 406425013838 motif 1; other site 406425013839 active site 406425013840 motif 2; other site 406425013841 motif 3; other site 406425013842 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 406425013843 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 406425013844 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425013845 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425013846 Walker A motif; other site 406425013847 ATP binding site [chemical binding]; other site 406425013848 Walker B motif; other site 406425013849 arginine finger; other site 406425013850 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425013851 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 406425013852 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 406425013853 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 406425013854 Substrate binding site; other site 406425013855 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 406425013856 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 406425013857 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425013858 putative ADP-binding pocket [chemical binding]; other site 406425013859 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 406425013860 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 406425013861 Chain length determinant protein; Region: Wzz; pfam02706 406425013862 tyrosine kinase; Provisional; Region: PRK11519 406425013863 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 406425013864 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 406425013865 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 406425013866 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 406425013867 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 406425013868 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425013869 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425013870 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 406425013871 polysaccharide export protein Wza; Provisional; Region: PRK15078 406425013872 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425013873 SLBB domain; Region: SLBB; pfam10531 406425013874 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 406425013875 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 406425013876 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 406425013877 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 406425013878 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013879 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013880 dimerization interface [polypeptide binding]; other site 406425013881 Uncharacterized conserved protein [Function unknown]; Region: COG1739 406425013882 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 406425013883 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 406425013884 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 406425013885 OmpW family; Region: OmpW; cl17427 406425013886 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 406425013887 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425013888 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 406425013889 putative acyl-acceptor binding pocket; other site 406425013890 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 406425013891 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 406425013892 putative active site [active] 406425013893 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 406425013894 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 406425013895 Walker A/P-loop; other site 406425013896 ATP binding site [chemical binding]; other site 406425013897 Q-loop/lid; other site 406425013898 ABC transporter signature motif; other site 406425013899 Walker B; other site 406425013900 D-loop; other site 406425013901 H-loop/switch region; other site 406425013902 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 406425013903 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425013904 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 406425013905 haloalkane dehalogenase; Provisional; Region: PRK00870 406425013906 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 406425013907 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425013908 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 406425013909 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 406425013910 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425013911 ATP binding site [chemical binding]; other site 406425013912 putative Mg++ binding site [ion binding]; other site 406425013913 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425013914 nucleotide binding region [chemical binding]; other site 406425013915 ATP-binding site [chemical binding]; other site 406425013916 DEAD/H associated; Region: DEAD_assoc; pfam08494 406425013917 putative transporter; Provisional; Region: PRK11021 406425013918 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 406425013919 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 406425013920 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425013921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425013922 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013923 dimerization interface [polypeptide binding]; other site 406425013924 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425013925 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425013926 non-specific DNA binding site [nucleotide binding]; other site 406425013927 salt bridge; other site 406425013928 sequence-specific DNA binding site [nucleotide binding]; other site 406425013929 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 406425013930 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 406425013931 heterodimer interface [polypeptide binding]; other site 406425013932 multimer interface [polypeptide binding]; other site 406425013933 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 406425013934 active site 406425013935 protocatechuate 3,4-dioxygenase, alpha subunit; Region: protocat_alph; TIGR02423 406425013936 active site 406425013937 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425013938 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425013939 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 406425013940 catalytic site [active] 406425013941 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 406425013942 SxDxEG motif; other site 406425013943 active site 406425013944 metal binding site [ion binding]; metal-binding site 406425013945 homopentamer interface [polypeptide binding]; other site 406425013946 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 406425013947 homodimer interface [polypeptide binding]; other site 406425013948 homotetramer interface [polypeptide binding]; other site 406425013949 active site pocket [active] 406425013950 cleavage site 406425013951 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 406425013952 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 406425013953 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013954 dimer interface [polypeptide binding]; other site 406425013955 conserved gate region; other site 406425013956 putative PBP binding loops; other site 406425013957 ABC-ATPase subunit interface; other site 406425013958 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 406425013959 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013960 dimer interface [polypeptide binding]; other site 406425013961 conserved gate region; other site 406425013962 putative PBP binding loops; other site 406425013963 ABC-ATPase subunit interface; other site 406425013964 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 406425013965 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 406425013966 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 406425013967 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425013968 Walker A/P-loop; other site 406425013969 ATP binding site [chemical binding]; other site 406425013970 Q-loop/lid; other site 406425013971 ABC transporter signature motif; other site 406425013972 Walker B; other site 406425013973 D-loop; other site 406425013974 H-loop/switch region; other site 406425013975 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425013976 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425013977 Walker A/P-loop; other site 406425013978 ATP binding site [chemical binding]; other site 406425013979 Q-loop/lid; other site 406425013980 ABC transporter signature motif; other site 406425013981 Walker B; other site 406425013982 D-loop; other site 406425013983 H-loop/switch region; other site 406425013984 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 406425013985 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 406425013986 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 406425013987 catalytic nucleophile [active] 406425013988 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425013989 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425013990 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425013991 putative active site [active] 406425013992 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013993 D-galactonate transporter; Region: 2A0114; TIGR00893 406425013994 putative substrate translocation pore; other site 406425013995 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 406425013996 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 406425013997 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 406425013998 putative active site [active] 406425013999 putative catalytic site [active] 406425014000 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425014001 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425014002 trimer interface [polypeptide binding]; other site 406425014003 eyelet of channel; other site 406425014004 BCCT family transporter; Region: BCCT; pfam02028 406425014005 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425014006 Methyltransferase domain; Region: Methyltransf_31; pfam13847 406425014007 S-adenosylmethionine binding site [chemical binding]; other site 406425014008 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 406425014009 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425014010 active site 406425014011 metal binding site [ion binding]; metal-binding site 406425014012 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 406425014013 Predicted transporter component [General function prediction only]; Region: COG2391 406425014014 Sulphur transport; Region: Sulf_transp; pfam04143 406425014015 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 406425014016 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425014017 dimerization interface [polypeptide binding]; other site 406425014018 putative DNA binding site [nucleotide binding]; other site 406425014019 putative Zn2+ binding site [ion binding]; other site 406425014020 benzoate transport; Region: 2A0115; TIGR00895 406425014021 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014022 putative substrate translocation pore; other site 406425014023 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014024 salicylate hydroxylase; Provisional; Region: PRK08163 406425014025 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425014026 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 406425014027 maleylacetoacetate isomerase; Region: maiA; TIGR01262 406425014028 C-terminal domain interface [polypeptide binding]; other site 406425014029 GSH binding site (G-site) [chemical binding]; other site 406425014030 putative dimer interface [polypeptide binding]; other site 406425014031 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 406425014032 dimer interface [polypeptide binding]; other site 406425014033 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 406425014034 N-terminal domain interface [polypeptide binding]; other site 406425014035 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 406425014036 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425014037 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 406425014038 Cupin domain; Region: Cupin_2; pfam07883 406425014039 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014040 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425014041 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425014042 dimerization interface [polypeptide binding]; other site 406425014043 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 406425014044 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 406425014045 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425014046 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425014047 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425014048 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 406425014049 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 406425014050 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425014051 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425014052 inhibitor site; inhibition site 406425014053 active site 406425014054 dimer interface [polypeptide binding]; other site 406425014055 catalytic residue [active] 406425014056 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 406425014057 Spore germination protein; Region: Spore_permease; cl17796 406425014058 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 406425014059 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 406425014060 dimer interface [polypeptide binding]; other site 406425014061 NADP binding site [chemical binding]; other site 406425014062 catalytic residues [active] 406425014063 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 406425014064 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 406425014065 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 406425014066 Bacterial SH3 domain; Region: SH3_3; pfam08239 406425014067 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 406425014068 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425014069 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 406425014070 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425014071 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425014072 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 406425014073 DNA binding residues [nucleotide binding] 406425014074 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 406425014075 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 406425014076 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 406425014077 DNA binding residues [nucleotide binding] 406425014078 putative dimer interface [polypeptide binding]; other site 406425014079 putative metal binding residues [ion binding]; other site 406425014080 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 406425014081 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425014082 MarR family; Region: MarR_2; pfam12802 406425014083 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425014084 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014085 putative substrate translocation pore; other site 406425014086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014087 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 406425014088 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 406425014089 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 406425014090 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 406425014091 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 406425014092 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 406425014093 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 406425014094 active site 406425014095 metal-binding site 406425014096 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 406425014097 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425014098 tetramer interface [polypeptide binding]; other site 406425014099 active site 406425014100 Mg2+/Mn2+ binding site [ion binding]; other site 406425014101 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 406425014102 active site 406425014103 metal-binding site 406425014104 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425014105 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 406425014106 PYR/PP interface [polypeptide binding]; other site 406425014107 dimer interface [polypeptide binding]; other site 406425014108 TPP binding site [chemical binding]; other site 406425014109 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 406425014110 TPP-binding site [chemical binding]; other site 406425014111 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425014112 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425014113 catalytic residue [active] 406425014114 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425014115 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425014116 dimerization interface [polypeptide binding]; other site 406425014117 ligand binding site [chemical binding]; other site 406425014118 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 406425014119 active site 406425014120 homodimer interface [polypeptide binding]; other site 406425014121 threonine synthase; Validated; Region: PRK08197 406425014122 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 406425014123 homodimer interface [polypeptide binding]; other site 406425014124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014125 catalytic residue [active] 406425014126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 406425014127 YheO-like PAS domain; Region: PAS_6; pfam08348 406425014128 HTH domain; Region: HTH_22; pfam13309 406425014129 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425014130 Helix-turn-helix domain; Region: HTH_38; pfam13936 406425014131 Integrase core domain; Region: rve; pfam00665 406425014132 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 406425014133 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 406425014134 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 406425014135 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 406425014136 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 406425014137 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 406425014138 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 406425014139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 406425014140 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 406425014141 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 406425014142 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 406425014143 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 406425014144 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 406425014145 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 406425014146 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 406425014147 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 406425014148 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 406425014149 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 406425014150 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 406425014151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 406425014152 Uncharacterized conserved protein [Function unknown]; Region: COG2308 406425014153 cell density-dependent motility repressor; Provisional; Region: PRK10082 406425014154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014155 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425014156 dimerization interface [polypeptide binding]; other site 406425014157 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 406425014158 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 406425014159 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 406425014160 putative active site [active] 406425014161 putative metal binding site [ion binding]; other site 406425014162 N-glycosyltransferase; Provisional; Region: PRK11204 406425014163 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 406425014164 DXD motif; other site 406425014165 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 406425014166 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 406425014167 glutaminase active site [active] 406425014168 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425014169 dimer interface [polypeptide binding]; other site 406425014170 active site 406425014171 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425014172 dimer interface [polypeptide binding]; other site 406425014173 active site 406425014174 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 406425014175 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425014176 Cytochrome c; Region: Cytochrom_C; pfam00034 406425014177 allantoate amidohydrolase; Reviewed; Region: PRK12891 406425014178 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425014179 active site 406425014180 metal binding site [ion binding]; metal-binding site 406425014181 dimer interface [polypeptide binding]; other site 406425014182 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 406425014183 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425014184 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425014185 dimerization interface [polypeptide binding]; other site 406425014186 ligand binding site [chemical binding]; other site 406425014187 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425014188 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014189 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425014190 dimerization interface [polypeptide binding]; other site 406425014191 substrate binding pocket [chemical binding]; other site 406425014192 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425014193 oligomeric interface; other site 406425014194 putative active site [active] 406425014195 homodimer interface [polypeptide binding]; other site 406425014196 peroxiredoxin; Region: AhpC; TIGR03137 406425014197 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 406425014198 dimer interface [polypeptide binding]; other site 406425014199 decamer (pentamer of dimers) interface [polypeptide binding]; other site 406425014200 catalytic triad [active] 406425014201 peroxidatic and resolving cysteines [active] 406425014202 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 406425014203 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 406425014204 catalytic residue [active] 406425014205 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 406425014206 catalytic residues [active] 406425014207 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425014208 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425014209 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 406425014210 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 406425014211 hypothetical protein; Provisional; Region: PRK07483 406425014212 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425014213 inhibitor-cofactor binding pocket; inhibition site 406425014214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014215 catalytic residue [active] 406425014216 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 406425014217 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 406425014218 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425014219 Walker A/P-loop; other site 406425014220 ATP binding site [chemical binding]; other site 406425014221 Q-loop/lid; other site 406425014222 ABC transporter signature motif; other site 406425014223 Walker B; other site 406425014224 D-loop; other site 406425014225 H-loop/switch region; other site 406425014226 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425014227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014228 dimer interface [polypeptide binding]; other site 406425014229 conserved gate region; other site 406425014230 putative PBP binding loops; other site 406425014231 ABC-ATPase subunit interface; other site 406425014232 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425014233 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425014234 substrate binding pocket [chemical binding]; other site 406425014235 membrane-bound complex binding site; other site 406425014236 hinge residues; other site 406425014237 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425014238 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 406425014239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425014240 Walker A/P-loop; other site 406425014241 ATP binding site [chemical binding]; other site 406425014242 Q-loop/lid; other site 406425014243 ABC transporter signature motif; other site 406425014244 Walker B; other site 406425014245 D-loop; other site 406425014246 H-loop/switch region; other site 406425014247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425014248 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 406425014249 Walker A/P-loop; other site 406425014250 ATP binding site [chemical binding]; other site 406425014251 Q-loop/lid; other site 406425014252 ABC transporter signature motif; other site 406425014253 Walker B; other site 406425014254 D-loop; other site 406425014255 H-loop/switch region; other site 406425014256 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425014257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014258 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425014259 dimerization interface [polypeptide binding]; other site 406425014260 MAPEG family; Region: MAPEG; cl09190 406425014261 alanine racemase; Reviewed; Region: PRK13340 406425014262 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 406425014263 active site 406425014264 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425014265 substrate binding site [chemical binding]; other site 406425014266 catalytic residues [active] 406425014267 dimer interface [polypeptide binding]; other site 406425014268 enoyl-CoA hydratase; Validated; Region: PRK08139 406425014269 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425014270 substrate binding site [chemical binding]; other site 406425014271 oxyanion hole (OAH) forming residues; other site 406425014272 trimer interface [polypeptide binding]; other site 406425014273 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425014274 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014275 putative substrate translocation pore; other site 406425014276 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425014277 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014278 LysR substrate binding domain; Region: LysR_substrate; pfam03466 406425014279 dimerization interface [polypeptide binding]; other site 406425014280 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 406425014281 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 406425014282 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014283 active site 406425014284 phosphorylation site [posttranslational modification] 406425014285 intermolecular recognition site; other site 406425014286 dimerization interface [polypeptide binding]; other site 406425014287 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 406425014288 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425014289 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425014290 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425014291 dimerization interface [polypeptide binding]; other site 406425014292 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 406425014293 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 406425014294 putative binding surface; other site 406425014295 active site 406425014296 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425014297 ATP binding site [chemical binding]; other site 406425014298 Mg2+ binding site [ion binding]; other site 406425014299 G-X-G motif; other site 406425014300 putative hydrolase; Provisional; Region: PRK11460 406425014301 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 406425014302 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 406425014303 Aspartase; Region: Aspartase; cd01357 406425014304 active sites [active] 406425014305 tetramer interface [polypeptide binding]; other site 406425014306 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425014307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014308 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425014309 putative effector binding pocket; other site 406425014310 dimerization interface [polypeptide binding]; other site 406425014311 L-asparaginase II; Region: Asparaginase_II; pfam06089 406425014312 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 406425014313 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 406425014314 Predicted membrane protein [Function unknown]; Region: COG3817 406425014315 Protein of unknown function (DUF979); Region: DUF979; pfam06166 406425014316 Protein of unknown function (DUF969); Region: DUF969; pfam06149 406425014317 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 406425014318 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014319 active site 406425014320 phosphorylation site [posttranslational modification] 406425014321 intermolecular recognition site; other site 406425014322 CheB methylesterase; Region: CheB_methylest; pfam01339 406425014323 Response regulator receiver domain; Region: Response_reg; pfam00072 406425014324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014325 active site 406425014326 phosphorylation site [posttranslational modification] 406425014327 intermolecular recognition site; other site 406425014328 dimerization interface [polypeptide binding]; other site 406425014329 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425014330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425014331 metal binding site [ion binding]; metal-binding site 406425014332 active site 406425014333 I-site; other site 406425014334 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 406425014335 GAF domain; Region: GAF; pfam01590 406425014336 PAS fold; Region: PAS; pfam00989 406425014337 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425014338 putative active site [active] 406425014339 heme pocket [chemical binding]; other site 406425014340 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425014341 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425014342 metal binding site [ion binding]; metal-binding site 406425014343 active site 406425014344 I-site; other site 406425014345 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425014346 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425014347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014348 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 406425014349 putative effector binding pocket; other site 406425014350 putative dimerization interface [polypeptide binding]; other site 406425014351 Isochorismatase family; Region: Isochorismatase; pfam00857 406425014352 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 406425014353 catalytic triad [active] 406425014354 dimer interface [polypeptide binding]; other site 406425014355 conserved cis-peptide bond; other site 406425014356 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 406425014357 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425014358 motif II; other site 406425014359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425014360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014361 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425014362 dimerization interface [polypeptide binding]; other site 406425014363 shikimate transporter; Provisional; Region: PRK09952 406425014364 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014365 putative substrate translocation pore; other site 406425014366 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 406425014367 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 406425014368 tetrameric interface [polypeptide binding]; other site 406425014369 NAD binding site [chemical binding]; other site 406425014370 catalytic residues [active] 406425014371 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 406425014372 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 406425014373 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425014374 Cytochrome c; Region: Cytochrom_C; pfam00034 406425014375 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425014376 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 406425014377 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425014378 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425014379 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 406425014380 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425014381 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425014382 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 406425014383 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 406425014384 Isochorismatase family; Region: Isochorismatase; pfam00857 406425014385 catalytic triad [active] 406425014386 conserved cis-peptide bond; other site 406425014387 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425014388 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425014389 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 406425014390 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425014391 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425014392 MarR family; Region: MarR_2; cl17246 406425014393 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425014394 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425014395 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014396 putative substrate translocation pore; other site 406425014397 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 406425014398 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 406425014399 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 406425014400 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 406425014401 Na binding site [ion binding]; other site 406425014402 putative substrate binding site [chemical binding]; other site 406425014403 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 406425014404 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425014405 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014406 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425014407 dimerization interface [polypeptide binding]; other site 406425014408 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 406425014409 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 406425014410 substrate binding pocket [chemical binding]; other site 406425014411 membrane-bound complex binding site; other site 406425014412 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 406425014413 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 406425014414 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 406425014415 Ligand binding site; other site 406425014416 Putative Catalytic site; other site 406425014417 DXD motif; other site 406425014418 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 406425014419 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 406425014420 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425014421 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425014422 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014423 dimer interface [polypeptide binding]; other site 406425014424 conserved gate region; other site 406425014425 ABC-ATPase subunit interface; other site 406425014426 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425014427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014428 dimer interface [polypeptide binding]; other site 406425014429 putative PBP binding loops; other site 406425014430 ABC-ATPase subunit interface; other site 406425014431 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425014432 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425014433 Walker A/P-loop; other site 406425014434 ATP binding site [chemical binding]; other site 406425014435 Q-loop/lid; other site 406425014436 ABC transporter signature motif; other site 406425014437 Walker B; other site 406425014438 D-loop; other site 406425014439 H-loop/switch region; other site 406425014440 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 406425014441 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425014442 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 406425014443 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425014444 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 406425014445 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 406425014446 peptide binding site [polypeptide binding]; other site 406425014447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 406425014448 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425014449 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425014450 substrate binding pocket [chemical binding]; other site 406425014451 membrane-bound complex binding site; other site 406425014452 hinge residues; other site 406425014453 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 406425014454 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425014455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014456 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425014457 putative effector binding pocket; other site 406425014458 dimerization interface [polypeptide binding]; other site 406425014459 putrescine transporter; Provisional; Region: potE; PRK10655 406425014460 arginine decarboxylase; Provisional; Region: PRK15029 406425014461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014462 active site 406425014463 phosphorylation site [posttranslational modification] 406425014464 intermolecular recognition site; other site 406425014465 dimerization interface [polypeptide binding]; other site 406425014466 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425014467 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425014468 catalytic residue [active] 406425014469 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 406425014470 ornithine decarboxylase; Provisional; Region: PRK13578 406425014471 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 406425014472 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 406425014473 homodimer interface [polypeptide binding]; other site 406425014474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014475 catalytic residue [active] 406425014476 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 406425014477 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425014478 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014479 putative substrate translocation pore; other site 406425014480 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 406425014481 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 406425014482 putative active site [active] 406425014483 metal binding site [ion binding]; metal-binding site 406425014484 Uncharacterized conserved protein [Function unknown]; Region: COG1359 406425014485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014486 C factor cell-cell signaling protein; Provisional; Region: PRK09009 406425014487 NAD(P) binding site [chemical binding]; other site 406425014488 active site 406425014489 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425014490 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014491 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 406425014492 putative substrate binding pocket [chemical binding]; other site 406425014493 putative dimerization interface [polypeptide binding]; other site 406425014494 xanthine permease; Region: pbuX; TIGR03173 406425014495 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 406425014496 nudix motif; other site 406425014497 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 406425014498 short chain dehydrogenase; Provisional; Region: PRK06523 406425014499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014500 NAD(P) binding site [chemical binding]; other site 406425014501 active site 406425014502 SnoaL-like domain; Region: SnoaL_2; pfam12680 406425014503 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425014504 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 406425014505 amino acid transporter; Region: 2A0306; TIGR00909 406425014506 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425014507 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 406425014508 putative active site [active] 406425014509 catalytic triad [active] 406425014510 putative dimer interface [polypeptide binding]; other site 406425014511 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425014512 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425014513 DNA binding residues [nucleotide binding] 406425014514 dimerization interface [polypeptide binding]; other site 406425014515 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425014516 DNA binding site [nucleotide binding] 406425014517 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425014518 domain linker motif; other site 406425014519 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 406425014520 Cupin; Region: Cupin_6; pfam12852 406425014521 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425014522 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425014523 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425014524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425014525 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 406425014526 putative dimerization interface [polypeptide binding]; other site 406425014527 putative substrate binding pocket [chemical binding]; other site 406425014528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014529 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425014530 putative substrate translocation pore; other site 406425014531 Tannase and feruloyl esterase; Region: Tannase; pfam07519 406425014532 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425014533 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 406425014534 NADP binding site [chemical binding]; other site 406425014535 putative substrate binding site [chemical binding]; other site 406425014536 active site 406425014537 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 406425014538 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 406425014539 G1 box; other site 406425014540 putative GEF interaction site [polypeptide binding]; other site 406425014541 GTP/Mg2+ binding site [chemical binding]; other site 406425014542 Switch I region; other site 406425014543 G2 box; other site 406425014544 G3 box; other site 406425014545 Switch II region; other site 406425014546 G4 box; other site 406425014547 G5 box; other site 406425014548 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 406425014549 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 406425014550 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 406425014551 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 406425014552 selenocysteine synthase; Provisional; Region: PRK04311 406425014553 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 406425014554 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 406425014555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425014556 catalytic residue [active] 406425014557 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 406425014558 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 406425014559 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 406425014560 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 406425014561 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 406425014562 4Fe-4S binding domain; Region: Fer4; cl02805 406425014563 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 406425014564 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 406425014565 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 406425014566 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 406425014567 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 406425014568 molybdopterin cofactor binding site; other site 406425014569 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 406425014570 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 406425014571 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425014572 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425014573 trimer interface [polypeptide binding]; other site 406425014574 eyelet of channel; other site 406425014575 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 406425014576 dimer interface [polypeptide binding]; other site 406425014577 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425014578 Walker A/P-loop; other site 406425014579 ATP binding site [chemical binding]; other site 406425014580 aminoglycoside resistance protein; Provisional; Region: PRK13746 406425014581 Nucleotidyltransferase domain; Region: NTP_transf_2; pfam01909 406425014582 metal binding triad [ion binding]; metal-binding site 406425014583 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 406425014584 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 406425014585 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 406425014586 active site 406425014587 tetramer interface; other site 406425014588 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 406425014589 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425014590 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 406425014591 putative ADP-binding pocket [chemical binding]; other site 406425014592 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425014593 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425014594 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 406425014595 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 406425014596 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 406425014597 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 406425014598 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 406425014599 NADP-binding site; other site 406425014600 homotetramer interface [polypeptide binding]; other site 406425014601 substrate binding site [chemical binding]; other site 406425014602 homodimer interface [polypeptide binding]; other site 406425014603 active site 406425014604 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425014605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014606 NAD(P) binding site [chemical binding]; other site 406425014607 active site 406425014608 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425014609 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425014610 putative active site [active] 406425014611 putative NTP binding site [chemical binding]; other site 406425014612 putative nucleic acid binding site [nucleotide binding]; other site 406425014613 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425014614 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 406425014615 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 406425014616 homodimer interface [polypeptide binding]; other site 406425014617 substrate-cofactor binding pocket; other site 406425014618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014619 catalytic residue [active] 406425014620 amidophosphoribosyltransferase; Provisional; Region: PRK09246 406425014621 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 406425014622 active site 406425014623 tetramer interface [polypeptide binding]; other site 406425014624 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425014625 active site 406425014626 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 406425014627 Colicin V production protein; Region: Colicin_V; pfam02674 406425014628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 406425014629 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 406425014630 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425014631 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425014632 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 406425014633 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 406425014634 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 406425014635 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 406425014636 substrate binding site [chemical binding]; other site 406425014637 active site 406425014638 catalytic residues [active] 406425014639 heterodimer interface [polypeptide binding]; other site 406425014640 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 406425014641 DNA methylase; Region: N6_N4_Mtase; pfam01555 406425014642 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 406425014643 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 406425014644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014645 catalytic residue [active] 406425014646 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 406425014647 active site 406425014648 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 406425014649 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 406425014650 dimerization interface 3.5A [polypeptide binding]; other site 406425014651 active site 406425014652 FimV N-terminal domain; Region: FimV_core; TIGR03505 406425014653 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 406425014654 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 406425014655 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 406425014656 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 406425014657 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 406425014658 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 406425014659 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 406425014660 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 406425014661 tartrate dehydrogenase; Region: TTC; TIGR02089 406425014662 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 406425014663 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 406425014664 substrate binding site [chemical binding]; other site 406425014665 Entericidin EcnA/B family; Region: Entericidin; cl02322 406425014666 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 406425014667 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 406425014668 substrate binding site [chemical binding]; other site 406425014669 ligand binding site [chemical binding]; other site 406425014670 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425014671 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425014672 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425014673 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 406425014674 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 406425014675 glutathione s-transferase; Provisional; Region: PTZ00057 406425014676 GSH binding site (G-site) [chemical binding]; other site 406425014677 C-terminal domain interface [polypeptide binding]; other site 406425014678 dimer interface [polypeptide binding]; other site 406425014679 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 406425014680 dimer interface [polypeptide binding]; other site 406425014681 N-terminal domain interface [polypeptide binding]; other site 406425014682 substrate binding pocket (H-site) [chemical binding]; other site 406425014683 lysine transporter; Provisional; Region: PRK10836 406425014684 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425014685 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 406425014686 AsnC family; Region: AsnC_trans_reg; pfam01037 406425014687 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 406425014688 Amidinotransferase; Region: Amidinotransf; cl12043 406425014689 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 406425014690 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 406425014691 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425014692 Cupin domain; Region: Cupin_2; cl17218 406425014693 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425014694 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425014695 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 406425014696 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 406425014697 dimer interface [polypeptide binding]; other site 406425014698 active site 406425014699 citrylCoA binding site [chemical binding]; other site 406425014700 NADH binding [chemical binding]; other site 406425014701 cationic pore residues; other site 406425014702 oxalacetate/citrate binding site [chemical binding]; other site 406425014703 coenzyme A binding site [chemical binding]; other site 406425014704 catalytic triad [active] 406425014705 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 406425014706 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 406425014707 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 406425014708 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 406425014709 L-aspartate oxidase; Provisional; Region: PRK06175 406425014710 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 406425014711 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 406425014712 SdhC subunit interface [polypeptide binding]; other site 406425014713 proximal heme binding site [chemical binding]; other site 406425014714 cardiolipin binding site; other site 406425014715 Iron-sulfur protein interface; other site 406425014716 proximal quinone binding site [chemical binding]; other site 406425014717 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 406425014718 Iron-sulfur protein interface; other site 406425014719 proximal quinone binding site [chemical binding]; other site 406425014720 SdhD (CybS) interface [polypeptide binding]; other site 406425014721 proximal heme binding site [chemical binding]; other site 406425014722 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 406425014723 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425014724 DNA-binding site [nucleotide binding]; DNA binding site 406425014725 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 406425014726 malate dehydrogenase; Provisional; Region: PRK05442 406425014727 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 406425014728 NAD(P) binding site [chemical binding]; other site 406425014729 dimer interface [polypeptide binding]; other site 406425014730 malate binding site [chemical binding]; other site 406425014731 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 406425014732 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 406425014733 2-methylcitrate dehydratase; Region: prpD; TIGR02330 406425014734 aconitate hydratase; Provisional; Region: acnA; PRK12881 406425014735 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 406425014736 substrate binding site [chemical binding]; other site 406425014737 ligand binding site [chemical binding]; other site 406425014738 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 406425014739 substrate binding site [chemical binding]; other site 406425014740 Domain of unknown function (DU1801); Region: DUF1801; cl17490 406425014741 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 406425014742 putative hydrophobic ligand binding site [chemical binding]; other site 406425014743 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425014744 dimerization interface [polypeptide binding]; other site 406425014745 putative DNA binding site [nucleotide binding]; other site 406425014746 putative Zn2+ binding site [ion binding]; other site 406425014747 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 406425014748 peptidase domain interface [polypeptide binding]; other site 406425014749 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 406425014750 active site 406425014751 catalytic triad [active] 406425014752 calcium binding site [ion binding]; other site 406425014753 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425014754 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014755 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014756 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425014757 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014758 dimer interface [polypeptide binding]; other site 406425014759 conserved gate region; other site 406425014760 putative PBP binding loops; other site 406425014761 ABC-ATPase subunit interface; other site 406425014762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014763 dimer interface [polypeptide binding]; other site 406425014764 conserved gate region; other site 406425014765 putative PBP binding loops; other site 406425014766 ABC-ATPase subunit interface; other site 406425014767 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 406425014768 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 406425014769 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 406425014770 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 406425014771 Walker A/P-loop; other site 406425014772 ATP binding site [chemical binding]; other site 406425014773 Q-loop/lid; other site 406425014774 ABC transporter signature motif; other site 406425014775 Walker B; other site 406425014776 D-loop; other site 406425014777 H-loop/switch region; other site 406425014778 TOBE domain; Region: TOBE_2; pfam08402 406425014779 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425014780 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425014781 DNA-binding site [nucleotide binding]; DNA binding site 406425014782 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425014783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014784 homodimer interface [polypeptide binding]; other site 406425014785 catalytic residue [active] 406425014786 lipase chaperone; Provisional; Region: PRK01294 406425014787 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 406425014788 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 406425014789 Lipase (class 2); Region: Lipase_2; pfam01674 406425014790 PGAP1-like protein; Region: PGAP1; pfam07819 406425014791 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 406425014792 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425014793 N-terminal plug; other site 406425014794 ligand-binding site [chemical binding]; other site 406425014795 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 406425014796 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 406425014797 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 406425014798 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425014799 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 406425014800 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425014801 E3 interaction surface; other site 406425014802 lipoyl attachment site [posttranslational modification]; other site 406425014803 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425014804 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 406425014805 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 406425014806 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 406425014807 Methyltransferase domain; Region: Methyltransf_23; pfam13489 406425014808 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425014809 S-adenosylmethionine binding site [chemical binding]; other site 406425014810 NAD-dependent deacetylase; Provisional; Region: PRK05333 406425014811 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 406425014812 NAD+ binding site [chemical binding]; other site 406425014813 substrate binding site [chemical binding]; other site 406425014814 Zn binding site [ion binding]; other site 406425014815 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 406425014816 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425014817 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 406425014818 putative mechanosensitive channel protein; Provisional; Region: PRK11465 406425014819 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425014820 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 406425014821 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425014822 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 406425014823 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 406425014824 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425014825 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425014826 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425014827 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014828 putative substrate translocation pore; other site 406425014829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014830 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 406425014831 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 406425014832 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 406425014833 tetramer interface [polypeptide binding]; other site 406425014834 heme binding pocket [chemical binding]; other site 406425014835 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 406425014836 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 406425014837 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 406425014838 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425014839 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425014840 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425014841 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425014842 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425014843 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425014844 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014845 active site 406425014846 phosphorylation site [posttranslational modification] 406425014847 intermolecular recognition site; other site 406425014848 dimerization interface [polypeptide binding]; other site 406425014849 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425014850 DNA binding site [nucleotide binding] 406425014851 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 406425014852 peptidase domain interface [polypeptide binding]; other site 406425014853 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 406425014854 active site 406425014855 catalytic triad [active] 406425014856 calcium binding site [ion binding]; other site 406425014857 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 406425014858 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 406425014859 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425014860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425014861 DNA-binding site [nucleotide binding]; DNA binding site 406425014862 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425014863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014864 homodimer interface [polypeptide binding]; other site 406425014865 catalytic residue [active] 406425014866 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 406425014867 PLD-like domain; Region: PLDc_2; pfam13091 406425014868 putative active site [active] 406425014869 catalytic site [active] 406425014870 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 406425014871 PLD-like domain; Region: PLDc_2; pfam13091 406425014872 putative active site [active] 406425014873 catalytic site [active] 406425014874 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 406425014875 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 406425014876 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425014877 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 406425014878 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425014879 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425014880 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425014881 DNA binding residues [nucleotide binding] 406425014882 DNA primase; Validated; Region: dnaG; PRK05667 406425014883 CHC2 zinc finger; Region: zf-CHC2; pfam01807 406425014884 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 406425014885 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 406425014886 active site 406425014887 metal binding site [ion binding]; metal-binding site 406425014888 interdomain interaction site; other site 406425014889 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 406425014890 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 406425014891 Yqey-like protein; Region: YqeY; pfam09424 406425014892 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 406425014893 Predicted flavoproteins [General function prediction only]; Region: COG2081 406425014894 UGMP family protein; Validated; Region: PRK09604 406425014895 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 406425014896 putative GTP cyclohydrolase; Provisional; Region: PRK13674 406425014897 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 406425014898 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 406425014899 TPP-binding site; other site 406425014900 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425014901 PYR/PP interface [polypeptide binding]; other site 406425014902 dimer interface [polypeptide binding]; other site 406425014903 TPP binding site [chemical binding]; other site 406425014904 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425014905 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 406425014906 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 406425014907 substrate binding pocket [chemical binding]; other site 406425014908 chain length determination region; other site 406425014909 substrate-Mg2+ binding site; other site 406425014910 catalytic residues [active] 406425014911 aspartate-rich region 1; other site 406425014912 active site lid residues [active] 406425014913 aspartate-rich region 2; other site 406425014914 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 406425014915 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425014916 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425014917 [2Fe-2S] cluster binding site [ion binding]; other site 406425014918 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 406425014919 alpha subunit interface [polypeptide binding]; other site 406425014920 active site 406425014921 substrate binding site [chemical binding]; other site 406425014922 Fe binding site [ion binding]; other site 406425014923 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 406425014924 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 406425014925 active site residue [active] 406425014926 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 406425014927 active site residue [active] 406425014928 Dienelactone hydrolase family; Region: DLH; pfam01738 406425014929 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 406425014930 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 406425014931 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425014932 DNA polymerase I; Provisional; Region: PRK05755 406425014933 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 406425014934 active site 406425014935 metal binding site 1 [ion binding]; metal-binding site 406425014936 putative 5' ssDNA interaction site; other site 406425014937 metal binding site 3; metal-binding site 406425014938 metal binding site 2 [ion binding]; metal-binding site 406425014939 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 406425014940 putative DNA binding site [nucleotide binding]; other site 406425014941 putative metal binding site [ion binding]; other site 406425014942 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 406425014943 active site 406425014944 catalytic site [active] 406425014945 substrate binding site [chemical binding]; other site 406425014946 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 406425014947 active site 406425014948 DNA binding site [nucleotide binding] 406425014949 catalytic site [active] 406425014950 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 406425014951 AMP nucleosidase; Provisional; Region: PRK08292 406425014952 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 406425014953 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 406425014954 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 406425014955 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 406425014956 putative active site [active] 406425014957 putative substrate binding site [chemical binding]; other site 406425014958 ATP binding site [chemical binding]; other site 406425014959 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425014960 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425014961 putative Zn2+ binding site [ion binding]; other site 406425014962 putative DNA binding site [nucleotide binding]; other site 406425014963 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 406425014964 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 406425014965 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 406425014966 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 406425014967 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 406425014968 active site 406425014969 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 406425014970 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 406425014971 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014972 dimer interface [polypeptide binding]; other site 406425014973 conserved gate region; other site 406425014974 putative PBP binding loops; other site 406425014975 ABC-ATPase subunit interface; other site 406425014976 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 406425014977 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425014978 Walker A/P-loop; other site 406425014979 ATP binding site [chemical binding]; other site 406425014980 Q-loop/lid; other site 406425014981 ABC transporter signature motif; other site 406425014982 Walker B; other site 406425014983 D-loop; other site 406425014984 H-loop/switch region; other site 406425014985 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 406425014986 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 406425014987 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 406425014988 molybdenum-pterin binding domain; Region: Mop; TIGR00638 406425014989 CHAD domain; Region: CHAD; pfam05235 406425014990 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425014991 active site 1 [active] 406425014992 dimer interface [polypeptide binding]; other site 406425014993 hexamer interface [polypeptide binding]; other site 406425014994 active site 2 [active] 406425014995 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425014996 active site 1 [active] 406425014997 dimer interface [polypeptide binding]; other site 406425014998 hexamer interface [polypeptide binding]; other site 406425014999 active site 2 [active] 406425015000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015002 LysR substrate binding domain; Region: LysR_substrate; pfam03466 406425015003 dimerization interface [polypeptide binding]; other site 406425015004 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 406425015005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425015006 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425015007 dimer interface [polypeptide binding]; other site 406425015008 phosphorylation site [posttranslational modification] 406425015009 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 406425015010 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 406425015011 Domain of unknown function DUF21; Region: DUF21; pfam01595 406425015012 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 406425015013 Transporter associated domain; Region: CorC_HlyC; smart01091 406425015014 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 406425015015 active site 406425015016 thiamine phosphate binding site [chemical binding]; other site 406425015017 pyrophosphate binding site [ion binding]; other site 406425015018 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 406425015019 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 406425015020 active site 406425015021 catalytic site [active] 406425015022 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 406425015023 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425015024 S-adenosylmethionine binding site [chemical binding]; other site 406425015025 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425015026 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 406425015027 putative C-terminal domain interface [polypeptide binding]; other site 406425015028 putative GSH binding site (G-site) [chemical binding]; other site 406425015029 putative dimer interface [polypeptide binding]; other site 406425015030 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 406425015031 putative N-terminal domain interface [polypeptide binding]; other site 406425015032 putative dimer interface [polypeptide binding]; other site 406425015033 putative substrate binding pocket (H-site) [chemical binding]; other site 406425015034 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 406425015035 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 406425015036 active site 406425015037 metal binding site [ion binding]; metal-binding site 406425015038 RES domain; Region: RES; smart00953 406425015039 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 406425015040 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425015041 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425015042 substrate binding pocket [chemical binding]; other site 406425015043 membrane-bound complex binding site; other site 406425015044 hinge residues; other site 406425015045 Predicted membrane protein [Function unknown]; Region: COG2246 406425015046 GtrA-like protein; Region: GtrA; pfam04138 406425015047 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 406425015048 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425015049 Walker A motif; other site 406425015050 ATP binding site [chemical binding]; other site 406425015051 Walker B motif; other site 406425015052 arginine finger; other site 406425015053 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425015054 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 406425015055 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 406425015056 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 406425015057 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 406425015058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015059 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425015060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015061 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425015062 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425015063 Coenzyme A binding pocket [chemical binding]; other site 406425015064 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015065 putative substrate translocation pore; other site 406425015066 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015067 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425015068 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 406425015069 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425015070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015071 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425015072 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425015073 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425015074 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 406425015075 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425015076 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425015077 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425015078 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425015079 active site 406425015080 tyrosine kinase; Provisional; Region: PRK11519 406425015081 Chain length determinant protein; Region: Wzz; pfam02706 406425015082 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 406425015083 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425015084 P-loop; other site 406425015085 Magnesium ion binding site [ion binding]; other site 406425015086 polysaccharide export protein Wza; Provisional; Region: PRK15078 406425015087 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425015088 SLBB domain; Region: SLBB; pfam10531 406425015089 SLBB domain; Region: SLBB; pfam10531 406425015090 Low molecular weight phosphatase family; Region: LMWPc; cd00115 406425015091 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 406425015092 active site 406425015093 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 406425015094 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 406425015095 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 406425015096 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 406425015097 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 406425015098 Bacterial sugar transferase; Region: Bac_transf; pfam02397 406425015099 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 406425015100 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 406425015101 Substrate binding site; other site 406425015102 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 406425015103 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 406425015104 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 406425015105 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 406425015106 Rubrerythrin [Energy production and conversion]; Region: COG1592 406425015107 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 406425015108 binuclear metal center [ion binding]; other site 406425015109 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 406425015110 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425015111 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425015112 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 406425015113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 406425015114 YCII-related domain; Region: YCII; cl00999 406425015115 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 406425015116 generic binding surface I; other site 406425015117 generic binding surface II; other site 406425015118 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 406425015119 putative active site [active] 406425015120 putative catalytic site [active] 406425015121 putative Mg binding site IVb [ion binding]; other site 406425015122 putative DNA binding site [nucleotide binding]; other site 406425015123 putative phosphate binding site [ion binding]; other site 406425015124 putative Mg binding site IVa [ion binding]; other site 406425015125 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 406425015126 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 406425015127 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 406425015128 Domain of unknown function DUF20; Region: UPF0118; pfam01594 406425015129 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 406425015130 Prostaglandin dehydrogenases; Region: PGDH; cd05288 406425015131 NAD(P) binding site [chemical binding]; other site 406425015132 substrate binding site [chemical binding]; other site 406425015133 dimer interface [polypeptide binding]; other site 406425015134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425015135 short chain dehydrogenase; Validated; Region: PRK07069 406425015136 NAD(P) binding site [chemical binding]; other site 406425015137 active site 406425015138 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 406425015139 active site 406425015140 manganese transport protein MntH; Reviewed; Region: PRK00701 406425015141 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425015142 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425015143 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015145 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 406425015146 substrate binding pocket [chemical binding]; other site 406425015147 dimerization interface [polypeptide binding]; other site 406425015148 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 406425015149 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 406425015150 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425015151 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 406425015152 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 406425015153 Walker A/P-loop; other site 406425015154 ATP binding site [chemical binding]; other site 406425015155 Q-loop/lid; other site 406425015156 ABC transporter signature motif; other site 406425015157 Walker B; other site 406425015158 D-loop; other site 406425015159 H-loop/switch region; other site 406425015160 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425015161 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425015162 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 406425015163 Lumazine binding domain; Region: Lum_binding; pfam00677 406425015164 Lumazine binding domain; Region: Lum_binding; pfam00677 406425015165 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 406425015166 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 406425015167 putative Cl- selectivity filter; other site 406425015168 putative pore gating glutamate residue; other site 406425015169 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 406425015170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015171 active site 406425015172 phosphorylation site [posttranslational modification] 406425015173 intermolecular recognition site; other site 406425015174 dimerization interface [polypeptide binding]; other site 406425015175 CheB methylesterase; Region: CheB_methylest; pfam01339 406425015176 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 406425015177 putative binding surface; other site 406425015178 active site 406425015179 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015180 ATP binding site [chemical binding]; other site 406425015181 Mg2+ binding site [ion binding]; other site 406425015182 G-X-G motif; other site 406425015183 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 406425015184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015185 Response regulator receiver domain; Region: Response_reg; pfam00072 406425015186 active site 406425015187 phosphorylation site [posttranslational modification] 406425015188 intermolecular recognition site; other site 406425015189 dimerization interface [polypeptide binding]; other site 406425015190 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 406425015191 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 406425015192 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 406425015193 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425015194 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 406425015195 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425015196 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 406425015197 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425015198 dimerization interface [polypeptide binding]; other site 406425015199 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425015200 dimer interface [polypeptide binding]; other site 406425015201 putative CheW interface [polypeptide binding]; other site 406425015202 Response regulator receiver domain; Region: Response_reg; pfam00072 406425015203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015204 active site 406425015205 phosphorylation site [posttranslational modification] 406425015206 intermolecular recognition site; other site 406425015207 dimerization interface [polypeptide binding]; other site 406425015208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425015209 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 406425015210 dimer interface [polypeptide binding]; other site 406425015211 phosphorylation site [posttranslational modification] 406425015212 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015213 Mg2+ binding site [ion binding]; other site 406425015214 G-X-G motif; other site 406425015215 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 406425015216 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 406425015217 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425015218 NAD(P) binding site [chemical binding]; other site 406425015219 catalytic residues [active] 406425015220 acetolactate synthase; Reviewed; Region: PRK08322 406425015221 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425015222 PYR/PP interface [polypeptide binding]; other site 406425015223 dimer interface [polypeptide binding]; other site 406425015224 TPP binding site [chemical binding]; other site 406425015225 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425015226 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 406425015227 TPP-binding site [chemical binding]; other site 406425015228 dimer interface [polypeptide binding]; other site 406425015229 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 406425015230 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 406425015231 Protein of unknown function (DUF445); Region: DUF445; pfam04286 406425015232 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 406425015233 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425015234 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425015235 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 406425015236 [2Fe-2S] cluster binding site [ion binding]; other site 406425015237 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 406425015238 inter-subunit interface; other site 406425015239 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 406425015240 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 406425015241 putative alpha subunit interface [polypeptide binding]; other site 406425015242 putative active site [active] 406425015243 putative substrate binding site [chemical binding]; other site 406425015244 Fe binding site [ion binding]; other site 406425015245 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425015246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015247 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425015248 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 406425015249 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425015250 dimerization interface [polypeptide binding]; other site 406425015251 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425015252 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425015253 dimer interface [polypeptide binding]; other site 406425015254 putative CheW interface [polypeptide binding]; other site 406425015255 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425015256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015257 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 406425015258 dimerizarion interface [polypeptide binding]; other site 406425015259 CrgA pocket; other site 406425015260 substrate binding pocket [chemical binding]; other site 406425015261 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 406425015262 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 406425015263 octamer interface [polypeptide binding]; other site 406425015264 active site 406425015265 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 406425015266 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 406425015267 dimer interface [polypeptide binding]; other site 406425015268 active site 406425015269 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 406425015270 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 406425015271 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425015272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015274 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 406425015275 putative substrate binding pocket [chemical binding]; other site 406425015276 putative dimerization interface [polypeptide binding]; other site 406425015277 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 406425015278 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425015279 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 406425015280 active site 406425015281 FMN binding site [chemical binding]; other site 406425015282 2,4-decadienoyl-CoA binding site; other site 406425015283 catalytic residue [active] 406425015284 4Fe-4S cluster binding site [ion binding]; other site 406425015285 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425015286 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425015287 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425015288 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015289 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 406425015290 substrate binding site [chemical binding]; other site 406425015291 Protein of unknown function (DUF521); Region: DUF521; pfam04412 406425015292 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 406425015293 substrate binding site [chemical binding]; other site 406425015294 ligand binding site [chemical binding]; other site 406425015295 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425015296 MarR family; Region: MarR_2; pfam12802 406425015297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015299 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425015300 putative effector binding pocket; other site 406425015301 dimerization interface [polypeptide binding]; other site 406425015302 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425015303 MarR family; Region: MarR_2; pfam12802 406425015304 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 406425015305 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425015306 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425015307 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425015308 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015309 putative substrate translocation pore; other site 406425015310 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425015311 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425015312 MULE transposase domain; Region: MULE; pfam10551 406425015313 PAAR motif; Region: PAAR_motif; pfam05488 406425015314 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 406425015315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425015316 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 406425015317 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425015318 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425015319 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 406425015320 glutathione S-transferase; Provisional; Region: PRK15113 406425015321 TIGR02594 family protein; Region: TIGR02594 406425015322 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425015323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015324 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425015325 dimerization interface [polypeptide binding]; other site 406425015326 substrate binding pocket [chemical binding]; other site 406425015327 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015328 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425015329 putative substrate translocation pore; other site 406425015330 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425015331 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 406425015332 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 406425015333 active site 406425015334 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425015335 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 406425015336 Cache domain; Region: Cache_1; pfam02743 406425015337 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425015338 dimerization interface [polypeptide binding]; other site 406425015339 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425015340 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425015341 dimer interface [polypeptide binding]; other site 406425015342 putative CheW interface [polypeptide binding]; other site 406425015343 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 406425015344 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 406425015345 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425015346 ligand binding site [chemical binding]; other site 406425015347 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425015348 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425015349 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425015350 ligand binding site [chemical binding]; other site 406425015351 flexible hinge region; other site 406425015352 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 406425015353 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425015354 putative C-terminal domain interface [polypeptide binding]; other site 406425015355 putative GSH binding site (G-site) [chemical binding]; other site 406425015356 putative dimer interface [polypeptide binding]; other site 406425015357 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 406425015358 putative N-terminal domain interface [polypeptide binding]; other site 406425015359 putative dimer interface [polypeptide binding]; other site 406425015360 putative substrate binding pocket (H-site) [chemical binding]; other site 406425015361 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 406425015362 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 406425015363 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 406425015364 Cupin domain; Region: Cupin_2; cl17218 406425015365 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425015366 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425015367 Walker A/P-loop; other site 406425015368 ATP binding site [chemical binding]; other site 406425015369 Q-loop/lid; other site 406425015370 ABC transporter signature motif; other site 406425015371 Walker B; other site 406425015372 D-loop; other site 406425015373 H-loop/switch region; other site 406425015374 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425015375 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425015376 dimer interface [polypeptide binding]; other site 406425015377 conserved gate region; other site 406425015378 putative PBP binding loops; other site 406425015379 ABC-ATPase subunit interface; other site 406425015380 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425015381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425015382 dimer interface [polypeptide binding]; other site 406425015383 conserved gate region; other site 406425015384 putative PBP binding loops; other site 406425015385 ABC-ATPase subunit interface; other site 406425015386 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425015387 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425015388 trimer interface [polypeptide binding]; other site 406425015389 eyelet of channel; other site 406425015390 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 406425015391 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425015392 DNA-binding site [nucleotide binding]; DNA binding site 406425015393 UTRA domain; Region: UTRA; pfam07702 406425015394 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 406425015395 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 406425015396 homodimer interface [polypeptide binding]; other site 406425015397 active site 406425015398 TDP-binding site; other site 406425015399 acceptor substrate-binding pocket; other site 406425015400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425015401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425015402 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425015403 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425015404 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015405 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 406425015406 dimerizarion interface [polypeptide binding]; other site 406425015407 CrgA pocket; other site 406425015408 substrate binding pocket [chemical binding]; other site 406425015409 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 406425015410 lysine transporter; Provisional; Region: PRK10836 406425015411 Cache domain; Region: Cache_1; pfam02743 406425015412 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425015413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425015414 metal binding site [ion binding]; metal-binding site 406425015415 active site 406425015416 I-site; other site 406425015417 Predicted membrane protein [Function unknown]; Region: COG1289 406425015418 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 406425015419 argininosuccinate synthase; Validated; Region: PRK05370 406425015420 argininosuccinate synthase; Provisional; Region: PRK13820 406425015421 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 406425015422 active site 406425015423 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425015424 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015425 putative substrate translocation pore; other site 406425015426 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 406425015427 tartrate dehydrogenase; Region: TTC; TIGR02089 406425015428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015429 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 406425015430 putative effector binding pocket; other site 406425015431 putative dimerization interface [polypeptide binding]; other site 406425015432 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015434 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425015435 putative effector binding pocket; other site 406425015436 putative dimerization interface [polypeptide binding]; other site 406425015437 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425015438 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425015439 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425015440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015441 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425015442 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425015443 S-adenosylmethionine binding site [chemical binding]; other site 406425015444 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 406425015445 4-hydroxyphenylacetate 3-hydroxylase N terminal; Region: HpaB_N; pfam11794 406425015446 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 406425015447 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 406425015448 cysteine desulfurase; Provisional; Region: PRK14012 406425015449 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 406425015450 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425015451 catalytic residue [active] 406425015452 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425015453 MarR family; Region: MarR_2; pfam12802 406425015454 SnoaL-like domain; Region: SnoaL_4; cl17707 406425015455 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 406425015456 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 406425015457 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 406425015458 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425015459 Walker A motif; other site 406425015460 ATP binding site [chemical binding]; other site 406425015461 Walker B motif; other site 406425015462 arginine finger; other site 406425015463 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 406425015464 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 406425015465 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 406425015466 hypothetical protein; Reviewed; Region: PRK09588 406425015467 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 406425015468 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 406425015469 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 406425015470 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 406425015471 homodimer interface [polypeptide binding]; other site 406425015472 substrate-cofactor binding pocket; other site 406425015473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425015474 catalytic residue [active] 406425015475 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425015476 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425015477 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425015478 trimer interface [polypeptide binding]; other site 406425015479 eyelet of channel; other site 406425015480 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425015481 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 406425015482 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425015483 dimerization interface [polypeptide binding]; other site 406425015484 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425015485 dimer interface [polypeptide binding]; other site 406425015486 phosphorylation site [posttranslational modification] 406425015487 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015488 ATP binding site [chemical binding]; other site 406425015489 Mg2+ binding site [ion binding]; other site 406425015490 G-X-G motif; other site 406425015491 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 406425015492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015493 active site 406425015494 phosphorylation site [posttranslational modification] 406425015495 intermolecular recognition site; other site 406425015496 dimerization interface [polypeptide binding]; other site 406425015497 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425015498 DNA binding site [nucleotide binding] 406425015499 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 406425015500 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425015501 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 406425015502 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425015503 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 406425015504 Phosphotransferase enzyme family; Region: APH; pfam01636 406425015505 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 406425015506 active site 406425015507 ATP binding site [chemical binding]; other site 406425015508 substrate binding site [chemical binding]; other site 406425015509 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 406425015510 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425015511 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425015512 N-terminal plug; other site 406425015513 ligand-binding site [chemical binding]; other site 406425015514 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 406425015515 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425015516 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425015517 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 406425015518 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 406425015519 FAD binding pocket [chemical binding]; other site 406425015520 FAD binding motif [chemical binding]; other site 406425015521 phosphate binding motif [ion binding]; other site 406425015522 beta-alpha-beta structure motif; other site 406425015523 NAD binding pocket [chemical binding]; other site 406425015524 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425015525 catalytic loop [active] 406425015526 iron binding site [ion binding]; other site 406425015527 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 406425015528 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425015529 putative C-terminal domain interface [polypeptide binding]; other site 406425015530 putative GSH binding site (G-site) [chemical binding]; other site 406425015531 putative dimer interface [polypeptide binding]; other site 406425015532 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 406425015533 putative N-terminal domain interface [polypeptide binding]; other site 406425015534 putative dimer interface [polypeptide binding]; other site 406425015535 putative substrate binding pocket (H-site) [chemical binding]; other site 406425015536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015538 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425015539 putative effector binding pocket; other site 406425015540 dimerization interface [polypeptide binding]; other site 406425015541 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 406425015542 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425015543 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425015544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425015545 short chain dehydrogenase; Provisional; Region: PRK05650 406425015546 NAD(P) binding site [chemical binding]; other site 406425015547 active site 406425015548 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 406425015549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 406425015550 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 406425015551 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425015552 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425015553 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 406425015554 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015555 putative substrate translocation pore; other site 406425015556 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425015557 Predicted flavoprotein [General function prediction only]; Region: COG0431 406425015558 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 406425015559 hypothetical protein; Provisional; Region: PRK09040 406425015560 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425015561 ligand binding site [chemical binding]; other site 406425015562 Domain of unknown function (DUF802); Region: DUF802; pfam05650 406425015563 Domain of unknown function (DUF802); Region: DUF802; pfam05650 406425015564 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 406425015565 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425015566 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425015567 Coenzyme A binding pocket [chemical binding]; other site 406425015568 mercuric reductase; Validated; Region: PRK06370 406425015569 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425015570 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425015571 transcriptional regulator; Provisional; Region: PRK10632 406425015572 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015573 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425015574 putative effector binding pocket; other site 406425015575 putative dimerization interface [polypeptide binding]; other site 406425015576 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 406425015577 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425015578 putative NAD(P) binding site [chemical binding]; other site 406425015579 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 406425015580 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425015581 putative NAD(P) binding site [chemical binding]; other site 406425015582 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425015583 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425015584 salt bridge; other site 406425015585 non-specific DNA binding site [nucleotide binding]; other site 406425015586 sequence-specific DNA binding site [nucleotide binding]; other site 406425015587 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425015588 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425015589 putative active site [active] 406425015590 putative NTP binding site [chemical binding]; other site 406425015591 putative nucleic acid binding site [nucleotide binding]; other site 406425015592 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425015593 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 406425015594 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425015595 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425015596 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425015597 conserved cys residue [active] 406425015598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015599 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 406425015600 SnoaL-like domain; Region: SnoaL_3; pfam13474 406425015601 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 406425015602 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 406425015603 conserved cys residue [active] 406425015604 short chain dehydrogenase; Provisional; Region: PRK06500 406425015605 classical (c) SDRs; Region: SDR_c; cd05233 406425015606 NAD(P) binding site [chemical binding]; other site 406425015607 active site 406425015608 Beta-lactamase; Region: Beta-lactamase; pfam00144 406425015609 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 406425015610 BON domain; Region: BON; pfam04972 406425015611 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425015612 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425015613 trimer interface [polypeptide binding]; other site 406425015614 eyelet of channel; other site 406425015615 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015616 D-galactonate transporter; Region: 2A0114; TIGR00893 406425015617 putative substrate translocation pore; other site 406425015618 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425015619 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425015620 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425015621 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425015622 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425015623 active site 406425015624 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425015625 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425015626 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 406425015627 acyl-activating enzyme (AAE) consensus motif; other site 406425015628 putative AMP binding site [chemical binding]; other site 406425015629 putative active site [active] 406425015630 putative CoA binding site [chemical binding]; other site 406425015631 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015633 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015634 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425015635 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015636 putative substrate translocation pore; other site 406425015637 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 406425015638 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08269 406425015639 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425015640 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 406425015641 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 406425015642 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425015643 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015645 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015646 dimerization interface [polypeptide binding]; other site 406425015647 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425015648 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425015649 trimer interface [polypeptide binding]; other site 406425015650 eyelet of channel; other site 406425015651 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015652 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425015653 putative substrate translocation pore; other site 406425015654 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 406425015655 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 406425015656 FMN-binding pocket [chemical binding]; other site 406425015657 flavin binding motif; other site 406425015658 phosphate binding motif [ion binding]; other site 406425015659 beta-alpha-beta structure motif; other site 406425015660 NAD binding pocket [chemical binding]; other site 406425015661 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425015662 catalytic loop [active] 406425015663 iron binding site [ion binding]; other site 406425015664 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 406425015665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015666 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 406425015667 substrate binding pocket [chemical binding]; other site 406425015668 dimerization interface [polypeptide binding]; other site 406425015669 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425015670 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425015671 [2Fe-2S] cluster binding site [ion binding]; other site 406425015672 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 406425015673 putative alpha subunit interface [polypeptide binding]; other site 406425015674 putative active site [active] 406425015675 putative substrate binding site [chemical binding]; other site 406425015676 Fe binding site [ion binding]; other site 406425015677 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425015678 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425015679 active site 1 [active] 406425015680 dimer interface [polypeptide binding]; other site 406425015681 hexamer interface [polypeptide binding]; other site 406425015682 active site 2 [active] 406425015683 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425015684 active site 1 [active] 406425015685 dimer interface [polypeptide binding]; other site 406425015686 hexamer interface [polypeptide binding]; other site 406425015687 active site 2 [active] 406425015688 PAS domain; Region: PAS_9; pfam13426 406425015689 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425015690 putative active site [active] 406425015691 heme pocket [chemical binding]; other site 406425015692 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425015693 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425015694 putative active site [active] 406425015695 heme pocket [chemical binding]; other site 406425015696 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425015697 dimer interface [polypeptide binding]; other site 406425015698 phosphorylation site [posttranslational modification] 406425015699 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015700 ATP binding site [chemical binding]; other site 406425015701 Mg2+ binding site [ion binding]; other site 406425015702 G-X-G motif; other site 406425015703 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425015704 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425015705 active site 406425015706 SnoaL-like domain; Region: SnoaL_4; pfam13577 406425015707 Amidase; Region: Amidase; cl11426 406425015708 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 406425015709 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425015710 classical (c) SDRs; Region: SDR_c; cd05233 406425015711 NAD(P) binding site [chemical binding]; other site 406425015712 active site 406425015713 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 406425015714 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015715 active site 406425015716 phosphorylation site [posttranslational modification] 406425015717 intermolecular recognition site; other site 406425015718 dimerization interface [polypeptide binding]; other site 406425015719 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425015720 DNA binding residues [nucleotide binding] 406425015721 dimerization interface [polypeptide binding]; other site 406425015722 Flavin Reductases; Region: FlaRed; cl00801 406425015723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015724 putative substrate translocation pore; other site 406425015725 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425015726 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 406425015727 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425015728 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425015729 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425015730 putative DNA binding site [nucleotide binding]; other site 406425015731 putative Zn2+ binding site [ion binding]; other site 406425015732 AsnC family; Region: AsnC_trans_reg; pfam01037 406425015733 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425015734 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425015735 Coenzyme A binding pocket [chemical binding]; other site 406425015736 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425015737 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425015738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015739 choline dehydrogenase; Validated; Region: PRK02106 406425015740 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425015741 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 406425015742 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 406425015743 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425015744 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 406425015745 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 406425015746 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 406425015747 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 406425015748 active site 406425015749 LssY C-terminus; Region: LssY_C; pfam14067 406425015750 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425015751 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015752 active site 406425015753 phosphorylation site [posttranslational modification] 406425015754 intermolecular recognition site; other site 406425015755 dimerization interface [polypeptide binding]; other site 406425015756 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425015757 DNA binding residues [nucleotide binding] 406425015758 dimerization interface [polypeptide binding]; other site 406425015759 Histidine kinase; Region: HisKA_3; pfam07730 406425015760 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 406425015761 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015762 D-galactonate transporter; Region: 2A0114; TIGR00893 406425015763 putative substrate translocation pore; other site 406425015764 NMT1-like family; Region: NMT1_2; pfam13379 406425015765 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425015766 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425015767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015768 active site 406425015769 phosphorylation site [posttranslational modification] 406425015770 intermolecular recognition site; other site 406425015771 dimerization interface [polypeptide binding]; other site 406425015772 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425015773 DNA binding site [nucleotide binding] 406425015774 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425015775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425015776 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 406425015777 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425015778 dimer interface [polypeptide binding]; other site 406425015779 phosphorylation site [posttranslational modification] 406425015780 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015781 ATP binding site [chemical binding]; other site 406425015782 Mg2+ binding site [ion binding]; other site 406425015783 G-X-G motif; other site 406425015784 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425015785 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425015786 Walker A/P-loop; other site 406425015787 ATP binding site [chemical binding]; other site 406425015788 Q-loop/lid; other site 406425015789 ABC transporter signature motif; other site 406425015790 Walker B; other site 406425015791 D-loop; other site 406425015792 H-loop/switch region; other site 406425015793 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425015794 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425015795 Walker A/P-loop; other site 406425015796 ATP binding site [chemical binding]; other site 406425015797 Q-loop/lid; other site 406425015798 ABC transporter signature motif; other site 406425015799 Walker B; other site 406425015800 D-loop; other site 406425015801 H-loop/switch region; other site 406425015802 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425015803 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425015804 TM-ABC transporter signature motif; other site 406425015805 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425015806 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425015807 TM-ABC transporter signature motif; other site 406425015808 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425015809 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 406425015810 putative ligand binding site [chemical binding]; other site 406425015811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015813 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015814 dimerization interface [polypeptide binding]; other site 406425015815 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 406425015816 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 406425015817 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425015818 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 406425015819 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425015820 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 406425015821 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425015822 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 406425015823 putative DNA binding site [nucleotide binding]; other site 406425015824 putative Zn2+ binding site [ion binding]; other site 406425015825 AsnC family; Region: AsnC_trans_reg; pfam01037 406425015826 ornithine cyclodeaminase; Validated; Region: PRK07589 406425015827 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 406425015828 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 406425015829 Amidinotransferase; Region: Amidinotransf; pfam02274 406425015830 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 406425015831 nucleotide binding site [chemical binding]; other site 406425015832 putative NEF/HSP70 interaction site [polypeptide binding]; other site 406425015833 SBD interface [polypeptide binding]; other site 406425015834 DNA-K related protein; Region: DUF3731; pfam12531 406425015835 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 406425015836 nucleotide binding site [chemical binding]; other site 406425015837 putative NEF/HSP70 interaction site [polypeptide binding]; other site 406425015838 SBD interface [polypeptide binding]; other site 406425015839 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 406425015840 Predicted transcriptional regulator [Transcription]; Region: COG1959 406425015841 Transcriptional regulator; Region: Rrf2; pfam02082 406425015842 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 406425015843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 406425015844 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015846 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015847 dimerization interface [polypeptide binding]; other site 406425015848 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 406425015849 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 406425015850 dimer interface [polypeptide binding]; other site 406425015851 active site 406425015852 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425015853 substrate binding site [chemical binding]; other site 406425015854 catalytic residue [active] 406425015855 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 406425015856 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 406425015857 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 406425015858 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425015859 motif II; other site 406425015860 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425015861 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 406425015862 putative C-terminal domain interface [polypeptide binding]; other site 406425015863 putative GSH binding site (G-site) [chemical binding]; other site 406425015864 putative dimer interface [polypeptide binding]; other site 406425015865 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 406425015866 dimer interface [polypeptide binding]; other site 406425015867 N-terminal domain interface [polypeptide binding]; other site 406425015868 putative substrate binding pocket (H-site) [chemical binding]; other site 406425015869 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425015870 MarR family; Region: MarR_2; pfam12802 406425015871 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425015872 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 406425015873 tetramer interface [polypeptide binding]; other site 406425015874 active site 406425015875 Mg2+/Mn2+ binding site [ion binding]; other site 406425015876 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015877 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015878 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425015879 putative effector binding pocket; other site 406425015880 putative dimerization interface [polypeptide binding]; other site 406425015881 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425015882 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425015883 active site 406425015884 catalytic tetrad [active] 406425015885 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015886 putative substrate translocation pore; other site 406425015887 Cupin; Region: Cupin_6; pfam12852 406425015888 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015889 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425015890 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015891 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 406425015892 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 406425015893 enoyl-CoA hydratase; Validated; Region: PRK08788 406425015894 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425015895 substrate binding site [chemical binding]; other site 406425015896 oxyanion hole (OAH) forming residues; other site 406425015897 trimer interface [polypeptide binding]; other site 406425015898 RNase II stability modulator; Provisional; Region: PRK10060 406425015899 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425015900 metal binding site [ion binding]; metal-binding site 406425015901 active site 406425015902 I-site; other site 406425015903 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425015904 5-oxoprolinase; Region: PLN02666 406425015905 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 406425015906 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 406425015907 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 406425015908 benzoate transport; Region: 2A0115; TIGR00895 406425015909 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015910 putative substrate translocation pore; other site 406425015911 hypothetical protein; Provisional; Region: PRK05463 406425015912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015914 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425015915 dimerization interface [polypeptide binding]; other site 406425015916 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 406425015917 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 406425015918 Uncharacterized conserved protein [Function unknown]; Region: COG1262 406425015919 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 406425015920 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 406425015921 Sulfatase; Region: Sulfatase; cl17466 406425015922 Sulfatase; Region: Sulfatase; cl17466 406425015923 Sulfatase; Region: Sulfatase; cl17466 406425015924 short chain dehydrogenase; Provisional; Region: PRK07577 406425015925 classical (c) SDRs; Region: SDR_c; cd05233 406425015926 NAD(P) binding site [chemical binding]; other site 406425015927 active site 406425015928 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425015929 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015930 putative substrate translocation pore; other site 406425015931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425015933 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 406425015934 putative effector binding pocket; other site 406425015935 putative dimerization interface [polypeptide binding]; other site 406425015936 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 406425015937 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425015938 putative NAD(P) binding site [chemical binding]; other site 406425015939 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 406425015940 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425015941 N-terminal plug; other site 406425015942 ligand-binding site [chemical binding]; other site 406425015943 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015944 putative substrate translocation pore; other site 406425015945 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425015946 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425015947 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 406425015948 TolR protein; Region: tolR; TIGR02801 406425015949 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 406425015950 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 406425015951 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 406425015952 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425015953 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 406425015954 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425015955 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425015956 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425015957 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 406425015958 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425015959 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425015960 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425015961 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425015962 putative PBP binding loops; other site 406425015963 dimer interface [polypeptide binding]; other site 406425015964 ABC-ATPase subunit interface; other site 406425015965 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425015966 Walker A motif; other site 406425015967 ATP binding site [chemical binding]; other site 406425015968 Walker B motif; other site 406425015969 arginine finger; other site 406425015970 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 406425015971 active site 406425015972 Zn2+ binding site [ion binding]; other site 406425015973 intersubunit interface [polypeptide binding]; other site 406425015974 Secretory lipase; Region: LIP; pfam03583 406425015975 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 406425015976 oligomerisation interface [polypeptide binding]; other site 406425015977 mobile loop; other site 406425015978 roof hairpin; other site 406425015979 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 406425015980 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 406425015981 ring oligomerisation interface [polypeptide binding]; other site 406425015982 ATP/Mg binding site [chemical binding]; other site 406425015983 stacking interactions; other site 406425015984 hinge regions; other site 406425015985 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 406425015986 active site 406425015987 phosphorylation site [posttranslational modification] 406425015988 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 406425015989 nucleotide binding site [chemical binding]; other site 406425015990 substrate binding site [chemical binding]; other site 406425015991 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 406425015992 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 406425015993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425015994 catalytic residue [active] 406425015995 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425015996 non-specific DNA binding site [nucleotide binding]; other site 406425015997 salt bridge; other site 406425015998 sequence-specific DNA binding site [nucleotide binding]; other site 406425015999 serine O-acetyltransferase; Region: cysE; TIGR01172 406425016000 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 406425016001 trimer interface [polypeptide binding]; other site 406425016002 active site 406425016003 substrate binding site [chemical binding]; other site 406425016004 CoA binding site [chemical binding]; other site 406425016005 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 406425016006 active site residue [active] 406425016007 amidase; Provisional; Region: PRK07487 406425016008 Amidase; Region: Amidase; cl11426 406425016009 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 406425016010 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425016011 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425016012 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425016013 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 406425016014 homodimer interface [polypeptide binding]; other site 406425016015 catalytic residues [active] 406425016016 NAD binding site [chemical binding]; other site 406425016017 substrate binding pocket [chemical binding]; other site 406425016018 flexible flap; other site 406425016019 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425016020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425016021 DNA-binding site [nucleotide binding]; DNA binding site 406425016022 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425016023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425016024 homodimer interface [polypeptide binding]; other site 406425016025 catalytic residue [active] 406425016026 Epoxide hydrolase N terminus; Region: EHN; pfam06441 406425016027 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425016028 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 406425016029 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 406425016030 putative NAD(P) binding site [chemical binding]; other site 406425016031 putative active site [active] 406425016032 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425016033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016034 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425016035 dimerization interface [polypeptide binding]; other site 406425016036 substrate binding pocket [chemical binding]; other site 406425016037 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 406425016038 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 406425016039 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 406425016040 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425016041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425016042 homodimer interface [polypeptide binding]; other site 406425016043 catalytic residue [active] 406425016044 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425016045 EamA-like transporter family; Region: EamA; pfam00892 406425016046 EamA-like transporter family; Region: EamA; pfam00892 406425016047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016049 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016050 dimerization interface [polypeptide binding]; other site 406425016051 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425016052 Coenzyme A binding pocket [chemical binding]; other site 406425016053 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425016054 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425016055 Coenzyme A binding pocket [chemical binding]; other site 406425016056 malic enzyme; Reviewed; Region: PRK12861 406425016057 Malic enzyme, N-terminal domain; Region: malic; pfam00390 406425016058 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 406425016059 putative NAD(P) binding site [chemical binding]; other site 406425016060 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 406425016061 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425016062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016063 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016064 dimerization interface [polypeptide binding]; other site 406425016065 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425016066 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425016067 DNA-binding site [nucleotide binding]; DNA binding site 406425016068 FCD domain; Region: FCD; pfam07729 406425016069 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425016070 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425016071 dimerization interface [polypeptide binding]; other site 406425016072 ligand binding site [chemical binding]; other site 406425016073 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 406425016074 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425016075 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 406425016076 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 406425016077 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 406425016078 acyl-activating enzyme (AAE) consensus motif; other site 406425016079 AMP binding site [chemical binding]; other site 406425016080 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 406425016081 putative deacylase active site [active] 406425016082 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425016083 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425016084 active site 406425016085 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 406425016086 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 406425016087 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425016088 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 406425016089 putative C-terminal domain interface [polypeptide binding]; other site 406425016090 putative GSH binding site (G-site) [chemical binding]; other site 406425016091 putative dimer interface [polypeptide binding]; other site 406425016092 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 406425016093 putative N-terminal domain interface [polypeptide binding]; other site 406425016094 putative dimer interface [polypeptide binding]; other site 406425016095 putative substrate binding pocket (H-site) [chemical binding]; other site 406425016096 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425016097 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425016098 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425016099 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425016100 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 406425016101 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 406425016102 dimer interface [polypeptide binding]; other site 406425016103 putative functional site; other site 406425016104 putative MPT binding site; other site 406425016105 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 406425016106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 406425016107 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 406425016108 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 406425016109 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425016110 catalytic residue [active] 406425016111 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 406425016112 Beta-lactamase; Region: Beta-lactamase; pfam00144 406425016113 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425016114 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425016115 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425016116 dimerization interface [polypeptide binding]; other site 406425016117 ligand binding site [chemical binding]; other site 406425016118 CsbD-like; Region: CsbD; pfam05532 406425016119 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425016120 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425016121 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425016122 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425016123 PAS domain; Region: PAS_9; pfam13426 406425016124 PAS domain S-box; Region: sensory_box; TIGR00229 406425016125 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425016126 putative active site [active] 406425016127 heme pocket [chemical binding]; other site 406425016128 PAS domain S-box; Region: sensory_box; TIGR00229 406425016129 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425016130 putative active site [active] 406425016131 heme pocket [chemical binding]; other site 406425016132 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425016133 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016134 DNA binding residues [nucleotide binding] 406425016135 dimerization interface [polypeptide binding]; other site 406425016136 outer membrane lipoprotein; Provisional; Region: PRK11023 406425016137 CsbD-like; Region: CsbD; cl17424 406425016138 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 406425016139 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425016140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016141 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016142 dimerization interface [polypeptide binding]; other site 406425016143 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 406425016144 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425016145 N-terminal plug; other site 406425016146 ligand-binding site [chemical binding]; other site 406425016147 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 406425016148 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 406425016149 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 406425016150 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 406425016151 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 406425016152 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 406425016153 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 406425016154 tetrameric interface [polypeptide binding]; other site 406425016155 activator binding site; other site 406425016156 NADP binding site [chemical binding]; other site 406425016157 substrate binding site [chemical binding]; other site 406425016158 catalytic residues [active] 406425016159 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425016160 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 406425016161 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 406425016162 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 406425016163 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425016164 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425016165 N-terminal plug; other site 406425016166 ligand-binding site [chemical binding]; other site 406425016167 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425016168 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 406425016169 putative active site [active] 406425016170 putative FMN binding site [chemical binding]; other site 406425016171 putative substrate binding site [chemical binding]; other site 406425016172 putative catalytic residue [active] 406425016173 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 406425016174 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 406425016175 DNA binding residues [nucleotide binding] 406425016176 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 406425016177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016178 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425016179 NAD(P) binding site [chemical binding]; other site 406425016180 active site 406425016181 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425016182 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425016183 DNA binding site [nucleotide binding] 406425016184 domain linker motif; other site 406425016185 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 406425016186 dimerization interface [polypeptide binding]; other site 406425016187 ligand binding site [chemical binding]; other site 406425016188 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016189 D-galactonate transporter; Region: 2A0114; TIGR00893 406425016190 putative substrate translocation pore; other site 406425016191 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 406425016192 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 406425016193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016195 AlkA N-terminal domain; Region: AlkA_N; pfam06029 406425016196 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 406425016197 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 406425016198 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 406425016199 DNA binding site [nucleotide binding] 406425016200 active site 406425016201 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425016202 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425016203 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016204 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 406425016205 oligomerization interface [polypeptide binding]; other site 406425016206 active site 406425016207 metal binding site [ion binding]; metal-binding site 406425016208 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425016209 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425016210 putative DNA binding site [nucleotide binding]; other site 406425016211 putative Zn2+ binding site [ion binding]; other site 406425016212 AsnC family; Region: AsnC_trans_reg; pfam01037 406425016213 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 406425016214 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 406425016215 glutaminase active site [active] 406425016216 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425016217 dimer interface [polypeptide binding]; other site 406425016218 active site 406425016219 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425016220 dimer interface [polypeptide binding]; other site 406425016221 active site 406425016222 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 406425016223 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425016224 dimerization interface [polypeptide binding]; other site 406425016225 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 406425016226 phosphorylation site [posttranslational modification] 406425016227 dimer interface [polypeptide binding]; other site 406425016228 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016229 ATP binding site [chemical binding]; other site 406425016230 Mg2+ binding site [ion binding]; other site 406425016231 G-X-G motif; other site 406425016232 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425016233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016234 active site 406425016235 phosphorylation site [posttranslational modification] 406425016236 intermolecular recognition site; other site 406425016237 dimerization interface [polypeptide binding]; other site 406425016238 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425016239 DNA binding site [nucleotide binding] 406425016240 MltA-interacting protein MipA; Region: MipA; cl01504 406425016241 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425016242 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425016243 trimer interface [polypeptide binding]; other site 406425016244 eyelet of channel; other site 406425016245 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 406425016246 iron-sulfur cluster [ion binding]; other site 406425016247 [2Fe-2S] cluster binding site [ion binding]; other site 406425016248 YciI-like protein; Reviewed; Region: PRK12863 406425016249 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 406425016250 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 406425016251 active site 406425016252 dimer interface [polypeptide binding]; other site 406425016253 metal binding site [ion binding]; metal-binding site 406425016254 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425016255 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 406425016256 NAD(P) binding site [chemical binding]; other site 406425016257 catalytic residues [active] 406425016258 3-hydroxyanthranilic acid dioxygenase; Region: 3-HAO; cl17399 406425016259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016261 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425016262 putative effector binding pocket; other site 406425016263 dimerization interface [polypeptide binding]; other site 406425016264 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016265 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425016266 putative substrate translocation pore; other site 406425016267 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425016268 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 406425016269 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425016270 catalytic residue [active] 406425016271 Putative phosphatase (DUF442); Region: DUF442; cl17385 406425016272 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 406425016273 salt bridge; other site 406425016274 non-specific DNA binding site [nucleotide binding]; other site 406425016275 sequence-specific DNA binding site [nucleotide binding]; other site 406425016276 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425016277 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 406425016278 NAD(P) binding site [chemical binding]; other site 406425016279 DJ-1 family protein; Region: not_thiJ; TIGR01383 406425016280 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 406425016281 conserved cys residue [active] 406425016282 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425016283 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425016284 conserved cys residue [active] 406425016285 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016286 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016287 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 406425016288 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 406425016289 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 406425016290 generic binding surface I; other site 406425016291 generic binding surface II; other site 406425016292 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 406425016293 putative active site [active] 406425016294 putative catalytic site [active] 406425016295 putative Mg binding site IVb [ion binding]; other site 406425016296 putative phosphate binding site [ion binding]; other site 406425016297 putative DNA binding site [nucleotide binding]; other site 406425016298 putative Mg binding site IVa [ion binding]; other site 406425016299 CopC domain; Region: CopC; pfam04234 406425016300 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 406425016301 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 406425016302 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 406425016303 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 406425016304 Outer membrane efflux protein; Region: OEP; pfam02321 406425016305 Outer membrane efflux protein; Region: OEP; pfam02321 406425016306 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 406425016307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016308 active site 406425016309 phosphorylation site [posttranslational modification] 406425016310 intermolecular recognition site; other site 406425016311 dimerization interface [polypeptide binding]; other site 406425016312 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425016313 DNA binding site [nucleotide binding] 406425016314 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 406425016315 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425016316 dimerization interface [polypeptide binding]; other site 406425016317 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425016318 dimer interface [polypeptide binding]; other site 406425016319 phosphorylation site [posttranslational modification] 406425016320 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016321 ATP binding site [chemical binding]; other site 406425016322 Mg2+ binding site [ion binding]; other site 406425016323 G-X-G motif; other site 406425016324 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016325 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425016326 putative substrate translocation pore; other site 406425016327 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 406425016328 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 406425016329 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 406425016330 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 406425016331 putative metal binding site [ion binding]; other site 406425016332 putative homodimer interface [polypeptide binding]; other site 406425016333 putative homotetramer interface [polypeptide binding]; other site 406425016334 putative homodimer-homodimer interface [polypeptide binding]; other site 406425016335 putative allosteric switch controlling residues; other site 406425016336 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 406425016337 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 406425016338 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 406425016339 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 406425016340 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 406425016341 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 406425016342 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425016343 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 406425016344 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 406425016345 glutathionine S-transferase; Provisional; Region: PRK10542 406425016346 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 406425016347 C-terminal domain interface [polypeptide binding]; other site 406425016348 GSH binding site (G-site) [chemical binding]; other site 406425016349 dimer interface [polypeptide binding]; other site 406425016350 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 406425016351 dimer interface [polypeptide binding]; other site 406425016352 N-terminal domain interface [polypeptide binding]; other site 406425016353 substrate binding pocket (H-site) [chemical binding]; other site 406425016354 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425016355 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 406425016356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016357 D-galactonate transporter; Region: 2A0114; TIGR00893 406425016358 putative substrate translocation pore; other site 406425016359 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425016360 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016361 DNA binding residues [nucleotide binding] 406425016362 dimerization interface [polypeptide binding]; other site 406425016363 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425016364 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425016365 Coenzyme A binding pocket [chemical binding]; other site 406425016366 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 406425016367 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425016368 S-adenosylmethionine binding site [chemical binding]; other site 406425016369 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016371 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425016372 putative dimerization interface [polypeptide binding]; other site 406425016373 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425016374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425016375 Coenzyme A binding pocket [chemical binding]; other site 406425016376 cyanate hydratase; Validated; Region: PRK02866 406425016377 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 406425016378 oligomer interface [polypeptide binding]; other site 406425016379 active site 406425016380 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 406425016381 active site clefts [active] 406425016382 zinc binding site [ion binding]; other site 406425016383 dimer interface [polypeptide binding]; other site 406425016384 Probable transposase; Region: OrfB_IS605; pfam01385 406425016385 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 406425016386 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 406425016387 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 406425016388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016389 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 406425016390 dimerization interface [polypeptide binding]; other site 406425016391 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 406425016392 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 406425016393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016395 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016396 dimerization interface [polypeptide binding]; other site 406425016397 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 406425016398 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 406425016399 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425016400 pyruvate dehydrogenase; Provisional; Region: PRK09124 406425016401 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 406425016402 PYR/PP interface [polypeptide binding]; other site 406425016403 tetramer interface [polypeptide binding]; other site 406425016404 dimer interface [polypeptide binding]; other site 406425016405 TPP binding site [chemical binding]; other site 406425016406 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425016407 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 406425016408 TPP-binding site [chemical binding]; other site 406425016409 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425016410 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 406425016411 putative DNA binding site [nucleotide binding]; other site 406425016412 putative Zn2+ binding site [ion binding]; other site 406425016413 AsnC family; Region: AsnC_trans_reg; pfam01037 406425016414 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 406425016415 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 406425016416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425016417 catalytic residue [active] 406425016418 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 406425016419 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425016420 Sel1-like repeats; Region: SEL1; smart00671 406425016421 BetR domain; Region: BetR; pfam08667 406425016422 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 406425016423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016424 active site 406425016425 phosphorylation site [posttranslational modification] 406425016426 intermolecular recognition site; other site 406425016427 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 406425016428 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425016429 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425016430 dimer interface [polypeptide binding]; other site 406425016431 phosphorylation site [posttranslational modification] 406425016432 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016433 ATP binding site [chemical binding]; other site 406425016434 Mg2+ binding site [ion binding]; other site 406425016435 G-X-G motif; other site 406425016436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016437 Response regulator receiver domain; Region: Response_reg; pfam00072 406425016438 active site 406425016439 phosphorylation site [posttranslational modification] 406425016440 intermolecular recognition site; other site 406425016441 dimerization interface [polypeptide binding]; other site 406425016442 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 406425016443 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425016444 catalytic residues [active] 406425016445 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 406425016446 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 406425016447 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425016448 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 406425016449 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425016450 salt bridge; other site 406425016451 non-specific DNA binding site [nucleotide binding]; other site 406425016452 sequence-specific DNA binding site [nucleotide binding]; other site 406425016453 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425016454 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425016455 putative DNA binding site [nucleotide binding]; other site 406425016456 putative Zn2+ binding site [ion binding]; other site 406425016457 AsnC family; Region: AsnC_trans_reg; pfam01037 406425016458 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 406425016459 Predicted membrane protein [Function unknown]; Region: COG4541 406425016460 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 406425016461 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 406425016462 classical (c) SDRs; Region: SDR_c; cd05233 406425016463 NAD(P) binding site [chemical binding]; other site 406425016464 active site 406425016465 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 406425016466 putative active site [active] 406425016467 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 406425016468 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 406425016469 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 406425016470 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 406425016471 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 406425016472 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 406425016473 Cupin domain; Region: Cupin_2; cl17218 406425016474 allantoate amidohydrolase; Reviewed; Region: PRK12892 406425016475 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425016476 active site 406425016477 metal binding site [ion binding]; metal-binding site 406425016478 dimer interface [polypeptide binding]; other site 406425016479 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425016480 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016481 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425016482 dimerization interface [polypeptide binding]; other site 406425016483 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425016484 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425016485 catalytic residue [active] 406425016486 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425016487 dimerization interface [polypeptide binding]; other site 406425016488 putative DNA binding site [nucleotide binding]; other site 406425016489 putative Zn2+ binding site [ion binding]; other site 406425016490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016492 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425016493 putative effector binding pocket; other site 406425016494 dimerization interface [polypeptide binding]; other site 406425016495 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425016496 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425016497 active site 406425016498 catalytic tetrad [active] 406425016499 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 406425016500 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425016501 Walker A/P-loop; other site 406425016502 ATP binding site [chemical binding]; other site 406425016503 Q-loop/lid; other site 406425016504 ABC transporter signature motif; other site 406425016505 Walker B; other site 406425016506 D-loop; other site 406425016507 H-loop/switch region; other site 406425016508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425016509 Coenzyme A binding pocket [chemical binding]; other site 406425016510 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425016511 non-specific DNA binding site [nucleotide binding]; other site 406425016512 salt bridge; other site 406425016513 sequence-specific DNA binding site [nucleotide binding]; other site 406425016514 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 406425016515 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425016516 S-adenosylmethionine binding site [chemical binding]; other site 406425016517 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425016518 oligomeric interface; other site 406425016519 putative active site [active] 406425016520 homodimer interface [polypeptide binding]; other site 406425016521 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 406425016522 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 406425016523 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 406425016524 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425016525 catalytic residues [active] 406425016526 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 406425016527 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 406425016528 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 406425016529 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 406425016530 active site 406425016531 metal binding site [ion binding]; metal-binding site 406425016532 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 406425016533 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 406425016534 Walker A motif; other site 406425016535 ATP binding site [chemical binding]; other site 406425016536 Walker B motif; other site 406425016537 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 406425016538 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 406425016539 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 406425016540 Walker A motif; other site 406425016541 hexamer interface [polypeptide binding]; other site 406425016542 ATP binding site [chemical binding]; other site 406425016543 Walker B motif; other site 406425016544 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 406425016545 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 406425016546 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 406425016547 VirB7 interaction site; other site 406425016548 VirB8 protein; Region: VirB8; pfam04335 406425016549 Type IV secretion system proteins; Region: T4SS; pfam07996 406425016550 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 406425016551 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 406425016552 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 406425016553 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 406425016554 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 406425016555 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425016556 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425016557 catalytic residue [active] 406425016558 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425016559 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425016560 Helix-turn-helix domain; Region: HTH_38; pfam13936 406425016561 Integrase core domain; Region: rve; pfam00665 406425016562 Isochorismatase family; Region: Isochorismatase; pfam00857 406425016563 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 406425016564 catalytic triad [active] 406425016565 conserved cis-peptide bond; other site 406425016566 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016567 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016568 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425016569 putative effector binding pocket; other site 406425016570 dimerization interface [polypeptide binding]; other site 406425016571 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 406425016572 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425016573 catalytic residues [active] 406425016574 Ion transport protein; Region: Ion_trans; pfam00520 406425016575 Ion channel; Region: Ion_trans_2; pfam07885 406425016576 MarC family integral membrane protein; Region: MarC; cl00919 406425016577 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 406425016578 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425016579 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 406425016580 arsenical-resistance protein; Region: acr3; TIGR00832 406425016581 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 406425016582 Low molecular weight phosphatase family; Region: LMWPc; cd00115 406425016583 active site 406425016584 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425016585 dimerization interface [polypeptide binding]; other site 406425016586 putative DNA binding site [nucleotide binding]; other site 406425016587 putative Zn2+ binding site [ion binding]; other site 406425016588 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 406425016589 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 406425016590 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016591 active site 406425016592 phosphorylation site [posttranslational modification] 406425016593 intermolecular recognition site; other site 406425016594 dimerization interface [polypeptide binding]; other site 406425016595 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016596 DNA binding residues [nucleotide binding] 406425016597 dimerization interface [polypeptide binding]; other site 406425016598 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425016599 dimer interface [polypeptide binding]; other site 406425016600 phosphorylation site [posttranslational modification] 406425016601 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016602 ATP binding site [chemical binding]; other site 406425016603 Mg2+ binding site [ion binding]; other site 406425016604 G-X-G motif; other site 406425016605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 406425016606 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425016607 active site 406425016608 dimerization interface [polypeptide binding]; other site 406425016609 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425016610 DNA binding site [nucleotide binding] 406425016611 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425016612 dimer interface [polypeptide binding]; other site 406425016613 phosphorylation site [posttranslational modification] 406425016614 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016615 ATP binding site [chemical binding]; other site 406425016616 Mg2+ binding site [ion binding]; other site 406425016617 G-X-G motif; other site 406425016618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016619 active site 406425016620 phosphorylation site [posttranslational modification] 406425016621 intermolecular recognition site; other site 406425016622 dimerization interface [polypeptide binding]; other site 406425016623 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425016624 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425016625 trimer interface [polypeptide binding]; other site 406425016626 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 406425016627 trimer interface [polypeptide binding]; other site 406425016628 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 406425016629 trimer interface [polypeptide binding]; other site 406425016630 YadA-like C-terminal region; Region: YadA; pfam03895 406425016631 transcriptional regulator RcsB; Provisional; Region: PRK10840 406425016632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016633 active site 406425016634 phosphorylation site [posttranslational modification] 406425016635 intermolecular recognition site; other site 406425016636 dimerization interface [polypeptide binding]; other site 406425016637 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016638 DNA binding residues [nucleotide binding] 406425016639 dimerization interface [polypeptide binding]; other site 406425016640 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425016641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016642 active site 406425016643 phosphorylation site [posttranslational modification] 406425016644 intermolecular recognition site; other site 406425016645 dimerization interface [polypeptide binding]; other site 406425016646 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016647 DNA binding residues [nucleotide binding] 406425016648 dimerization interface [polypeptide binding]; other site 406425016649 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 406425016650 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425016651 ligand binding site [chemical binding]; other site 406425016652 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425016653 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425016654 trimer interface [polypeptide binding]; other site 406425016655 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 406425016656 trimer interface [polypeptide binding]; other site 406425016657 YadA-like C-terminal region; Region: YadA; pfam03895 406425016658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425016659 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425016660 dimer interface [polypeptide binding]; other site 406425016661 phosphorylation site [posttranslational modification] 406425016662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016663 ATP binding site [chemical binding]; other site 406425016664 Mg2+ binding site [ion binding]; other site 406425016665 G-X-G motif; other site 406425016666 Response regulator receiver domain; Region: Response_reg; pfam00072 406425016667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016668 active site 406425016669 phosphorylation site [posttranslational modification] 406425016670 intermolecular recognition site; other site 406425016671 dimerization interface [polypeptide binding]; other site 406425016672 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 406425016673 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 406425016674 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425016675 binding surface 406425016676 TPR motif; other site 406425016677 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425016678 TPR motif; other site 406425016679 binding surface 406425016680 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425016681 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 406425016682 nudix motif; other site 406425016683 SurA N-terminal domain; Region: SurA_N_3; cl07813 406425016684 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 406425016685 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 406425016686 active site 406425016687 zinc binding site [ion binding]; other site 406425016688 putative transposase OrfB; Reviewed; Region: PHA02517 406425016689 HTH-like domain; Region: HTH_21; pfam13276 406425016690 Integrase core domain; Region: rve; pfam00665 406425016691 Integrase core domain; Region: rve_3; pfam13683 406425016692 Transposase; Region: HTH_Tnp_1; pfam01527 406425016693 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 406425016694 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 406425016695 tetramer interface [polypeptide binding]; other site 406425016696 heme binding pocket [chemical binding]; other site 406425016697 Amino acid permease; Region: AA_permease_2; pfam13520 406425016698 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 406425016699 Bacterial sugar transferase; Region: Bac_transf; pfam02397 406425016700 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 406425016701 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425016702 SLBB domain; Region: SLBB; pfam10531 406425016703 Low molecular weight phosphatase family; Region: LMWPc; cd00115 406425016704 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 406425016705 active site 406425016706 tyrosine kinase; Provisional; Region: PRK11519 406425016707 Chain length determinant protein; Region: Wzz; cl15801 406425016708 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 406425016709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425016710 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425016711 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 406425016712 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 406425016713 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 406425016714 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 406425016715 2-isopropylmalate synthase; Validated; Region: PRK03739 406425016716 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 406425016717 active site 406425016718 catalytic residues [active] 406425016719 metal binding site [ion binding]; metal-binding site 406425016720 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 406425016721 IS2 transposase TnpB; Reviewed; Region: PRK09409 406425016722 HTH-like domain; Region: HTH_21; pfam13276 406425016723 Integrase core domain; Region: rve; pfam00665 406425016724 Integrase core domain; Region: rve_3; pfam13683 406425016725 Transposase; Region: HTH_Tnp_1; cl17663 406425016726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425016727 Transposase; Region: HTH_Tnp_1; pfam01527 406425016728 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425016729 Helix-turn-helix domain; Region: HTH_38; pfam13936 406425016730 Integrase core domain; Region: rve; pfam00665 406425016731 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 406425016732 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425016733 oligomeric interface; other site 406425016734 putative active site [active] 406425016735 homodimer interface [polypeptide binding]; other site 406425016736 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425016737 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425016738 trimer interface [polypeptide binding]; other site 406425016739 eyelet of channel; other site 406425016740 Amino acid synthesis; Region: AA_synth; pfam06684 406425016741 putative amidase; Provisional; Region: PRK06169 406425016742 Amidase; Region: Amidase; pfam01425 406425016743 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425016744 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 406425016745 ligand binding site [chemical binding]; other site 406425016746 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425016747 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425016748 Walker A/P-loop; other site 406425016749 ATP binding site [chemical binding]; other site 406425016750 Q-loop/lid; other site 406425016751 ABC transporter signature motif; other site 406425016752 Walker B; other site 406425016753 D-loop; other site 406425016754 H-loop/switch region; other site 406425016755 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 406425016756 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425016757 Walker A/P-loop; other site 406425016758 ATP binding site [chemical binding]; other site 406425016759 Q-loop/lid; other site 406425016760 ABC transporter signature motif; other site 406425016761 Walker B; other site 406425016762 D-loop; other site 406425016763 H-loop/switch region; other site 406425016764 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425016765 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425016766 TM-ABC transporter signature motif; other site 406425016767 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425016768 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425016769 TM-ABC transporter signature motif; other site 406425016770 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425016771 non-specific DNA binding site [nucleotide binding]; other site 406425016772 salt bridge; other site 406425016773 sequence-specific DNA binding site [nucleotide binding]; other site 406425016774 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425016775 non-specific DNA binding site [nucleotide binding]; other site 406425016776 salt bridge; other site 406425016777 sequence-specific DNA binding site [nucleotide binding]; other site 406425016778 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425016779 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425016780 DNA-binding site [nucleotide binding]; DNA binding site 406425016781 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 406425016782 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425016783 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425016784 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425016785 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 406425016786 active site 406425016787 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 406425016788 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 406425016789 active site 406425016790 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 406425016791 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425016792 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425016793 acyl-activating enzyme (AAE) consensus motif; other site 406425016794 AMP binding site [chemical binding]; other site 406425016795 active site 406425016796 CoA binding site [chemical binding]; other site 406425016797 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 406425016798 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 406425016799 dimer interface [polypeptide binding]; other site 406425016800 active site 406425016801 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425016802 catalytic residues [active] 406425016803 substrate binding site [chemical binding]; other site 406425016804 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425016805 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425016806 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425016807 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 406425016808 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 406425016809 active site 406425016810 hypothetical protein; Validated; Region: PRK06840 406425016811 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 406425016812 active site 406425016813 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425016814 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016815 DNA binding residues [nucleotide binding] 406425016816 dimerization interface [polypeptide binding]; other site 406425016817 Autoinducer synthetase; Region: Autoind_synth; cl17404 406425016818 H-NS histone family; Region: Histone_HNS; pfam00816 406425016819 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425016820 Ion transport protein; Region: Ion_trans; pfam00520 406425016821 Ion channel; Region: Ion_trans_2; pfam07885 406425016822 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016823 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425016824 putative substrate translocation pore; other site 406425016825 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016826 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 406425016827 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425016828 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425016829 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 406425016830 Cupin domain; Region: Cupin_2; pfam07883 406425016831 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425016832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016833 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016834 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016835 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425016836 putative effector binding pocket; other site 406425016837 dimerization interface [polypeptide binding]; other site 406425016838 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 406425016839 putative hydrophobic ligand binding site [chemical binding]; other site 406425016840 protein interface [polypeptide binding]; other site 406425016841 gate; other site 406425016842 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 406425016843 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 406425016844 acyl-activating enzyme (AAE) consensus motif; other site 406425016845 AMP binding site [chemical binding]; other site 406425016846 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425016847 thioester reductase domain; Region: Thioester-redct; TIGR01746 406425016848 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 406425016849 putative NAD(P) binding site [chemical binding]; other site 406425016850 active site 406425016851 putative substrate binding site [chemical binding]; other site 406425016852 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 406425016853 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 406425016854 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 406425016855 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 406425016856 hypothetical protein; Provisional; Region: PRK07481 406425016857 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425016858 inhibitor-cofactor binding pocket; inhibition site 406425016859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425016860 catalytic residue [active] 406425016861 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425016862 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425016863 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016864 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425016865 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016866 DNA binding residues [nucleotide binding] 406425016867 dimerization interface [polypeptide binding]; other site 406425016868 2-isopropylmalate synthase; Validated; Region: PRK03739 406425016869 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 406425016870 active site 406425016871 catalytic residues [active] 406425016872 metal binding site [ion binding]; metal-binding site 406425016873 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 406425016874 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 406425016875 N-Terminal Domain Of Bc2l-C Lectin; Region: Bc2l-C_N; cd12211 406425016876 trimer interface [polypeptide binding]; other site 406425016877 ligand binding site [chemical binding]; other site 406425016878 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 406425016879 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 406425016880 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 406425016881 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425016882 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 406425016883 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 406425016884 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425016885 putative active site [active] 406425016886 catalytic triad [active] 406425016887 putative dimer interface [polypeptide binding]; other site 406425016888 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 406425016889 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 406425016890 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 406425016891 Autotransporter beta-domain; Region: Autotransporter; smart00869 406425016892 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 406425016893 Peptidase family M23; Region: Peptidase_M23; pfam01551 406425016894 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 406425016895 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425016896 malate:quinone oxidoreductase; Validated; Region: PRK05257 406425016897 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 406425016898 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 406425016899 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425016900 ATP binding site [chemical binding]; other site 406425016901 Mg++ binding site [ion binding]; other site 406425016902 motif III; other site 406425016903 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425016904 nucleotide binding region [chemical binding]; other site 406425016905 ATP-binding site [chemical binding]; other site 406425016906 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 406425016907 putative RNA binding site [nucleotide binding]; other site 406425016908 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 406425016909 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 406425016910 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425016911 putative di-iron ligands [ion binding]; other site 406425016912 benzoate transporter; Region: benE; TIGR00843 406425016913 Benzoate membrane transport protein; Region: BenE; pfam03594 406425016914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016915 NAD(P) binding site [chemical binding]; other site 406425016916 active site 406425016917 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 406425016918 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016919 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425016920 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016923 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 406425016924 putative dimerization interface [polypeptide binding]; other site 406425016925 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 406425016926 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425016927 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 406425016928 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 406425016929 YcxB-like protein; Region: YcxB; pfam14317 406425016930 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 406425016931 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 406425016932 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425016933 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 406425016934 DNA polymerase II; Reviewed; Region: PRK05762 406425016935 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 406425016936 active site 406425016937 catalytic site [active] 406425016938 substrate binding site [chemical binding]; other site 406425016939 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 406425016940 active site 406425016941 metal-binding site 406425016942 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425016943 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 406425016944 HSP70 interaction site [polypeptide binding]; other site 406425016945 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 406425016946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016947 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 406425016948 substrate binding pocket [chemical binding]; other site 406425016949 dimerization interface [polypeptide binding]; other site 406425016950 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425016951 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425016952 active site 406425016953 short chain dehydrogenase; Provisional; Region: PRK06172 406425016954 classical (c) SDRs; Region: SDR_c; cd05233 406425016955 NAD(P) binding site [chemical binding]; other site 406425016956 active site 406425016957 short chain dehydrogenase; Provisional; Region: PRK07035 406425016958 classical (c) SDRs; Region: SDR_c; cd05233 406425016959 NAD(P) binding site [chemical binding]; other site 406425016960 active site 406425016961 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 406425016962 Phosphotransferase enzyme family; Region: APH; pfam01636 406425016963 putative active site [active] 406425016964 putative substrate binding site [chemical binding]; other site 406425016965 ATP binding site [chemical binding]; other site 406425016966 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425016967 catalytic core [active] 406425016968 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 406425016969 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 406425016970 BON domain; Region: BON; pfam04972 406425016971 transcriptional regulator; Provisional; Region: PRK10632 406425016972 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016973 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425016974 putative effector binding pocket; other site 406425016975 dimerization interface [polypeptide binding]; other site 406425016976 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 406425016977 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 406425016978 NAD(P) binding site [chemical binding]; other site 406425016979 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425016981 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016982 dimerization interface [polypeptide binding]; other site 406425016983 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 406425016984 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425016985 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016986 DNA binding residues [nucleotide binding] 406425016987 dimerization interface [polypeptide binding]; other site 406425016988 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425016989 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425016990 acyl-activating enzyme (AAE) consensus motif; other site 406425016991 AMP binding site [chemical binding]; other site 406425016992 active site 406425016993 CoA binding site [chemical binding]; other site 406425016994 chaperone protein HchA; Provisional; Region: PRK04155 406425016995 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 406425016996 conserved cys residue [active] 406425016997 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425016998 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425016999 active site 406425017000 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017001 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425017002 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 406425017003 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425017004 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425017005 lipid-transfer protein; Provisional; Region: PRK08256 406425017006 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 406425017007 active site 406425017008 acyl-CoA synthetase; Validated; Region: PRK06188 406425017009 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425017010 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 406425017011 acyl-activating enzyme (AAE) consensus motif; other site 406425017012 acyl-activating enzyme (AAE) consensus motif; other site 406425017013 putative AMP binding site [chemical binding]; other site 406425017014 putative active site [active] 406425017015 putative CoA binding site [chemical binding]; other site 406425017016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017017 NAD(P) binding site [chemical binding]; other site 406425017018 Cytochrome c; Region: Cytochrom_C; cl11414 406425017019 Cytochrome c; Region: Cytochrom_C; cl11414 406425017020 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 406425017021 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425017022 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 406425017023 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 406425017024 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 406425017025 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 406425017026 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 406425017027 homotrimer interaction site [polypeptide binding]; other site 406425017028 putative active site [active] 406425017029 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 406425017030 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017031 Cytochrome c; Region: Cytochrom_C; cl11414 406425017032 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425017033 Cytochrome c; Region: Cytochrom_C; pfam00034 406425017034 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 406425017035 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425017036 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425017037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017038 active site 406425017039 phosphorylation site [posttranslational modification] 406425017040 intermolecular recognition site; other site 406425017041 dimerization interface [polypeptide binding]; other site 406425017042 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425017043 DNA binding site [nucleotide binding] 406425017044 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425017045 HAMP domain; Region: HAMP; pfam00672 406425017046 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425017047 dimer interface [polypeptide binding]; other site 406425017048 phosphorylation site [posttranslational modification] 406425017049 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017050 Mg2+ binding site [ion binding]; other site 406425017051 G-X-G motif; other site 406425017052 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017053 putative substrate translocation pore; other site 406425017054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017056 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425017057 dimerization interface [polypeptide binding]; other site 406425017058 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 406425017059 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 406425017060 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425017061 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 406425017062 putative active site pocket [active] 406425017063 putative metal binding site [ion binding]; other site 406425017064 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425017065 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425017066 inhibitor site; inhibition site 406425017067 active site 406425017068 dimer interface [polypeptide binding]; other site 406425017069 catalytic residue [active] 406425017070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017071 D-galactonate transporter; Region: 2A0114; TIGR00893 406425017072 putative substrate translocation pore; other site 406425017073 Uncharacterized conserved protein [Function unknown]; Region: COG3391 406425017074 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 406425017075 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425017076 Amidohydrolase; Region: Amidohydro_2; pfam04909 406425017077 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425017078 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 406425017079 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 406425017080 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 406425017081 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425017082 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425017083 dimer interface [polypeptide binding]; other site 406425017084 conserved gate region; other site 406425017085 putative PBP binding loops; other site 406425017086 ABC-ATPase subunit interface; other site 406425017087 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425017088 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 406425017089 inhibitor binding site; inhibition site 406425017090 catalytic Zn binding site [ion binding]; other site 406425017091 structural Zn binding site [ion binding]; other site 406425017092 NADP binding site [chemical binding]; other site 406425017093 tetramer interface [polypeptide binding]; other site 406425017094 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 406425017095 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 406425017096 Walker A/P-loop; other site 406425017097 ATP binding site [chemical binding]; other site 406425017098 Q-loop/lid; other site 406425017099 ABC transporter signature motif; other site 406425017100 Walker B; other site 406425017101 D-loop; other site 406425017102 H-loop/switch region; other site 406425017103 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425017104 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425017105 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425017106 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 406425017107 N- and C-terminal domain interface [polypeptide binding]; other site 406425017108 active site 406425017109 MgATP binding site [chemical binding]; other site 406425017110 catalytic site [active] 406425017111 metal binding site [ion binding]; metal-binding site 406425017112 xylulose binding site [chemical binding]; other site 406425017113 homodimer interface [polypeptide binding]; other site 406425017114 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 406425017115 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 406425017116 DNA binding residues [nucleotide binding] 406425017117 dimer interface [polypeptide binding]; other site 406425017118 Esterase/lipase [General function prediction only]; Region: COG1647 406425017119 MASE1; Region: MASE1; pfam05231 406425017120 PAS fold; Region: PAS_3; pfam08447 406425017121 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425017122 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425017123 Coenzyme A binding pocket [chemical binding]; other site 406425017124 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 406425017125 SurA N-terminal domain; Region: SurA_N_3; cl07813 406425017126 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 406425017127 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 406425017128 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425017129 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 406425017130 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017131 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425017132 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425017133 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425017134 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 406425017135 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 406425017136 putative active site [active] 406425017137 putative metal binding site [ion binding]; other site 406425017138 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 406425017139 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 406425017140 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 406425017141 AMP-binding domain protein; Validated; Region: PRK07529 406425017142 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425017143 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 406425017144 acyl-activating enzyme (AAE) consensus motif; other site 406425017145 putative AMP binding site [chemical binding]; other site 406425017146 putative active site [active] 406425017147 putative CoA binding site [chemical binding]; other site 406425017148 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 406425017149 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425017150 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 406425017151 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 406425017152 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 406425017153 putative active site [active] 406425017154 putative metal binding site [ion binding]; other site 406425017155 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 406425017156 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425017157 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425017159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017160 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425017161 putative substrate translocation pore; other site 406425017162 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 406425017163 rRNA binding site [nucleotide binding]; other site 406425017164 predicted 30S ribosome binding site; other site 406425017165 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 406425017166 DNA-binding site [nucleotide binding]; DNA binding site 406425017167 RNA-binding motif; other site 406425017168 Fatty-acid desaturase [Lipid metabolism]; Region: OLE1; cl17656 406425017169 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 406425017170 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425017171 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425017172 ligand binding site [chemical binding]; other site 406425017173 flexible hinge region; other site 406425017174 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 406425017175 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 406425017176 NADPH bind site [chemical binding]; other site 406425017177 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 406425017178 putative FMN binding site [chemical binding]; other site 406425017179 NADPH bind site [chemical binding]; other site 406425017180 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 406425017181 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425017182 Transposase; Region: HTH_Tnp_1; pfam01527 406425017183 HTH-like domain; Region: HTH_21; pfam13276 406425017184 Integrase core domain; Region: rve; pfam00665 406425017185 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425017186 Helix-turn-helix domain; Region: HTH_38; pfam13936 406425017187 Integrase core domain; Region: rve; pfam00665 406425017188 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 406425017189 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017190 D-galactonate transporter; Region: 2A0114; TIGR00893 406425017191 putative substrate translocation pore; other site 406425017192 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 406425017193 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425017194 active site pocket [active] 406425017195 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 406425017196 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425017197 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425017198 classical (c) SDRs; Region: SDR_c; cd05233 406425017199 NAD(P) binding site [chemical binding]; other site 406425017200 active site 406425017201 OsmC-like protein; Region: OsmC; pfam02566 406425017202 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425017204 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 406425017205 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 406425017206 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 406425017207 catalytic residues [active] 406425017208 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425017209 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425017210 FMN binding site [chemical binding]; other site 406425017211 active site 406425017212 substrate binding site [chemical binding]; other site 406425017213 catalytic residue [active] 406425017214 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 406425017215 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425017216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425017217 homodimer interface [polypeptide binding]; other site 406425017218 catalytic residue [active] 406425017219 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 406425017220 active site 1 [active] 406425017221 dimer interface [polypeptide binding]; other site 406425017222 hexamer interface [polypeptide binding]; other site 406425017223 active site 2 [active] 406425017224 Transposase; Region: HTH_Tnp_1; cl17663 406425017225 putative transposase OrfB; Reviewed; Region: PHA02517 406425017226 HTH-like domain; Region: HTH_21; pfam13276 406425017227 Integrase core domain; Region: rve; pfam00665 406425017228 Integrase core domain; Region: rve_3; pfam13683 406425017229 Helix-turn-helix domain; Region: HTH_28; pfam13518 406425017230 putative transposase OrfB; Reviewed; Region: PHA02517 406425017231 HTH-like domain; Region: HTH_21; pfam13276 406425017232 Integrase core domain; Region: rve; pfam00665 406425017233 Integrase core domain; Region: rve_2; pfam13333 406425017234 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425017235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017236 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425017237 dimerization interface [polypeptide binding]; other site 406425017238 substrate binding pocket [chemical binding]; other site 406425017239 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 406425017240 EamA-like transporter family; Region: EamA; pfam00892 406425017241 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 406425017242 NmrA-like family; Region: NmrA; pfam05368 406425017243 NADP binding site [chemical binding]; other site 406425017244 active site 406425017245 regulatory binding site [polypeptide binding]; other site 406425017246 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425017247 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425017248 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425017249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017250 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425017251 dimerization interface [polypeptide binding]; other site 406425017252 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425017253 MULE transposase domain; Region: MULE; pfam10551 406425017254 Clostripain family; Region: Peptidase_C11; pfam03415 406425017255 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 406425017256 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 406425017257 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 406425017258 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 406425017259 putative active site [active] 406425017260 putative metal binding site [ion binding]; other site 406425017261 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425017262 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425017263 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425017264 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425017265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425017266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 406425017267 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 406425017268 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 406425017269 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 406425017270 active site 406425017271 catalytic triad [active] 406425017272 calcium binding site 1 [ion binding]; other site 406425017273 calcium binding site 2 [ion binding]; other site 406425017274 calcium binding site 3 [ion binding]; other site 406425017275 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 406425017276 catalytic residues [active] 406425017277 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 406425017278 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425017279 Helix-turn-helix domain; Region: HTH_38; pfam13936 406425017280 Integrase core domain; Region: rve; pfam00665 406425017281 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425017282 Transposase; Region: HTH_Tnp_1; pfam01527 406425017283 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425017284 benzoate transport; Region: 2A0115; TIGR00895 406425017285 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017286 putative substrate translocation pore; other site 406425017287 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 406425017288 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 406425017289 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 406425017290 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 406425017291 tetramer interface [polypeptide binding]; other site 406425017292 active site 406425017293 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 406425017294 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 406425017295 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 406425017296 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425017297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017299 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 406425017300 substrate binding pocket [chemical binding]; other site 406425017301 dimerization interface [polypeptide binding]; other site 406425017302 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 406425017303 GTP cyclohydrolase I; Provisional; Region: PLN03044 406425017304 active site 406425017305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017306 short chain dehydrogenase; Provisional; Region: PRK09134 406425017307 NAD(P) binding site [chemical binding]; other site 406425017308 active site 406425017309 serine O-acetyltransferase; Region: cysE; TIGR01172 406425017310 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 406425017311 trimer interface [polypeptide binding]; other site 406425017312 active site 406425017313 substrate binding site [chemical binding]; other site 406425017314 CoA binding site [chemical binding]; other site 406425017315 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 406425017316 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425017317 Ligand Binding Site [chemical binding]; other site 406425017318 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 406425017319 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425017320 ligand binding site [chemical binding]; other site 406425017321 flexible hinge region; other site 406425017322 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 406425017323 putative switch regulator; other site 406425017324 non-specific DNA interactions [nucleotide binding]; other site 406425017325 DNA binding site [nucleotide binding] 406425017326 sequence specific DNA binding site [nucleotide binding]; other site 406425017327 putative cAMP binding site [chemical binding]; other site 406425017328 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 406425017329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017330 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425017331 dimerization interface [polypeptide binding]; other site 406425017332 Lysine efflux permease [General function prediction only]; Region: COG1279 406425017333 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 406425017334 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 406425017335 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 406425017336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425017337 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 406425017338 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425017339 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425017340 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 406425017341 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425017342 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425017343 active site 406425017344 catalytic tetrad [active] 406425017345 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425017346 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425017347 Cupin domain; Region: Cupin_2; pfam07883 406425017348 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017349 D-galactonate transporter; Region: 2A0114; TIGR00893 406425017350 putative substrate translocation pore; other site 406425017351 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425017352 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 406425017353 putative NAD(P) binding site [chemical binding]; other site 406425017354 catalytic Zn binding site [ion binding]; other site 406425017355 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425017356 classical (c) SDRs; Region: SDR_c; cd05233 406425017357 NAD(P) binding site [chemical binding]; other site 406425017358 active site 406425017359 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425017360 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425017361 trimer interface [polypeptide binding]; other site 406425017362 eyelet of channel; other site 406425017363 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425017364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425017365 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 406425017366 choline dehydrogenase; Validated; Region: PRK02106 406425017367 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425017368 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425017369 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425017370 NAD(P) binding site [chemical binding]; other site 406425017371 catalytic residues [active] 406425017372 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 406425017373 YcaO-like family; Region: YcaO; pfam02624 406425017374 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 406425017375 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 406425017376 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 406425017377 Catalytic domain of Protein Kinases; Region: PKc; cd00180 406425017378 active site 406425017379 ATP binding site [chemical binding]; other site 406425017380 substrate binding site [chemical binding]; other site 406425017381 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 406425017382 activation loop (A-loop); other site 406425017383 cyclase homology domain; Region: CHD; cd07302 406425017384 nucleotidyl binding site; other site 406425017385 metal binding site [ion binding]; metal-binding site 406425017386 AAA ATPase domain; Region: AAA_16; pfam13191 406425017387 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 406425017388 phosphopeptide binding site; other site 406425017389 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 406425017390 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425017391 putative di-iron ligands [ion binding]; other site 406425017392 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 406425017393 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 406425017394 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 406425017395 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425017396 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cd01060 406425017397 putative di-iron ligands [ion binding]; other site 406425017398 GH3 auxin-responsive promoter; Region: GH3; pfam03321 406425017399 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425017400 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425017401 [2Fe-2S] cluster binding site [ion binding]; other site 406425017402 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425017403 hydrophobic ligand binding site; other site 406425017404 PAAR motif; Region: PAAR_motif; pfam05488 406425017405 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 406425017406 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 406425017407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425017408 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 406425017409 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425017410 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425017411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 406425017412 Predicted transcriptional regulators [Transcription]; Region: COG1695 406425017413 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 406425017414 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 406425017415 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 406425017416 FAD binding pocket [chemical binding]; other site 406425017417 FAD binding motif [chemical binding]; other site 406425017418 phosphate binding motif [ion binding]; other site 406425017419 NAD binding pocket [chemical binding]; other site 406425017420 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 406425017421 active site 406425017422 acetoacetate decarboxylase; Provisional; Region: PRK02265 406425017423 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 406425017424 classical (c) SDRs; Region: SDR_c; cd05233 406425017425 NAD(P) binding site [chemical binding]; other site 406425017426 active site 406425017427 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 406425017428 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 406425017429 nucleophile elbow; other site 406425017430 Patatin phospholipase; Region: DUF3734; pfam12536 406425017431 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017432 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017433 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425017434 dimerization interface [polypeptide binding]; other site 406425017435 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 406425017436 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 406425017437 transcriptional activator TtdR; Provisional; Region: PRK09801 406425017438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017439 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 406425017440 putative effector binding pocket; other site 406425017441 putative dimerization interface [polypeptide binding]; other site 406425017442 tartrate dehydrogenase; Region: TTC; TIGR02089 406425017443 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 406425017444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 406425017445 SnoaL-like domain; Region: SnoaL_2; pfam12680 406425017446 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425017448 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 406425017449 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425017450 NAD(P) binding site [chemical binding]; other site 406425017451 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 406425017452 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 406425017453 substrate-cofactor binding pocket; other site 406425017454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425017455 catalytic residue [active] 406425017456 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425017457 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425017458 non-specific DNA binding site [nucleotide binding]; other site 406425017459 salt bridge; other site 406425017460 sequence-specific DNA binding site [nucleotide binding]; other site 406425017461 Cupin domain; Region: Cupin_2; pfam07883 406425017462 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 406425017463 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 406425017464 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 406425017465 active site 406425017466 catalytic residues [active] 406425017467 Int/Topo IB signature motif; other site 406425017468 DNA binding site [nucleotide binding] 406425017469 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 406425017470 Initiator Replication protein; Region: Rep_3; pfam01051 406425017471 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 406425017472 ParB-like nuclease domain; Region: ParB; smart00470 406425017473 ParA-like protein; Provisional; Region: PHA02518 406425017474 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425017475 P-loop; other site 406425017476 Magnesium ion binding site [ion binding]; other site 406425017477 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 406425017478 ArsC family; Region: ArsC; pfam03960 406425017479 catalytic residues [active] 406425017480 Putative zinc-finger; Region: zf-HC2; pfam13490 406425017481 RNA polymerase sigma factor; Provisional; Region: PRK12545 406425017482 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425017483 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 406425017484 Predicted flavoprotein [General function prediction only]; Region: COG0431 406425017485 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425017486 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425017487 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425017488 dimer interface [polypeptide binding]; other site 406425017489 phosphorylation site [posttranslational modification] 406425017490 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017491 ATP binding site [chemical binding]; other site 406425017492 Mg2+ binding site [ion binding]; other site 406425017493 G-X-G motif; other site 406425017494 Response regulator receiver domain; Region: Response_reg; pfam00072 406425017495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017496 active site 406425017497 phosphorylation site [posttranslational modification] 406425017498 intermolecular recognition site; other site 406425017499 dimerization interface [polypeptide binding]; other site 406425017500 Response regulator receiver domain; Region: Response_reg; pfam00072 406425017501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017502 active site 406425017503 phosphorylation site [posttranslational modification] 406425017504 intermolecular recognition site; other site 406425017505 dimerization interface [polypeptide binding]; other site 406425017506 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 406425017507 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425017508 putative active site [active] 406425017509 heme pocket [chemical binding]; other site 406425017510 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 406425017511 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425017512 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425017513 metal binding site [ion binding]; metal-binding site 406425017514 active site 406425017515 I-site; other site 406425017516 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 406425017517 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425017518 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 406425017519 active site lid residues [active] 406425017520 substrate binding pocket [chemical binding]; other site 406425017521 catalytic residues [active] 406425017522 substrate-Mg2+ binding site; other site 406425017523 aspartate-rich region 1; other site 406425017524 aspartate-rich region 2; other site 406425017525 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425017526 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 406425017527 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 406425017528 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 406425017529 Active site cavity [active] 406425017530 catalytic acid [active] 406425017531 hypothetical protein; Provisional; Region: PRK07077 406425017532 VacJ like lipoprotein; Region: VacJ; cl01073 406425017533 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 406425017534 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 406425017535 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017536 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425017537 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425017538 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017539 putative substrate translocation pore; other site 406425017540 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425017541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017542 active site 406425017543 phosphorylation site [posttranslational modification] 406425017544 intermolecular recognition site; other site 406425017545 dimerization interface [polypeptide binding]; other site 406425017546 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425017547 DNA binding residues [nucleotide binding] 406425017548 dimerization interface [polypeptide binding]; other site 406425017549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 406425017550 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 406425017551 Histidine kinase; Region: HisKA_3; pfam07730 406425017552 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017553 ATP binding site [chemical binding]; other site 406425017554 Mg2+ binding site [ion binding]; other site 406425017555 G-X-G motif; other site 406425017556 Cache domain; Region: Cache_1; pfam02743 406425017557 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425017558 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425017559 metal binding site [ion binding]; metal-binding site 406425017560 active site 406425017561 I-site; other site 406425017562 malate synthase G; Provisional; Region: PRK02999 406425017563 active site 406425017564 Domain of unknown function (DUF336); Region: DUF336; cl01249 406425017565 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 406425017566 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425017567 ATP binding site [chemical binding]; other site 406425017568 Mg++ binding site [ion binding]; other site 406425017569 motif III; other site 406425017570 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425017571 nucleotide binding region [chemical binding]; other site 406425017572 ATP-binding site [chemical binding]; other site 406425017573 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425017574 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017575 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425017576 dimerization interface [polypeptide binding]; other site 406425017577 substrate binding pocket [chemical binding]; other site 406425017578 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425017579 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 406425017580 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 406425017581 NmrA-like family; Region: NmrA; pfam05368 406425017582 NAD(P) binding site [chemical binding]; other site 406425017583 active site lysine 406425017584 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425017585 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425017586 dimer interface [polypeptide binding]; other site 406425017587 conserved gate region; other site 406425017588 putative PBP binding loops; other site 406425017589 ABC-ATPase subunit interface; other site 406425017590 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 406425017591 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425017592 dimer interface [polypeptide binding]; other site 406425017593 putative PBP binding loops; other site 406425017594 ABC-ATPase subunit interface; other site 406425017595 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425017596 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 406425017597 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 406425017598 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 406425017599 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 406425017600 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 406425017601 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 406425017602 Walker A/P-loop; other site 406425017603 ATP binding site [chemical binding]; other site 406425017604 Q-loop/lid; other site 406425017605 ABC transporter signature motif; other site 406425017606 Walker B; other site 406425017607 D-loop; other site 406425017608 H-loop/switch region; other site 406425017609 TOBE domain; Region: TOBE_2; pfam08402 406425017610 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425017611 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425017612 DNA binding site [nucleotide binding] 406425017613 domain linker motif; other site 406425017614 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 406425017615 dimerization interface [polypeptide binding]; other site 406425017616 ligand binding site [chemical binding]; other site 406425017617 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017618 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425017619 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425017620 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425017621 DNA-binding site [nucleotide binding]; DNA binding site 406425017622 FCD domain; Region: FCD; pfam07729 406425017623 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 406425017624 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425017625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017626 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425017627 dimerization interface [polypeptide binding]; other site 406425017628 dihydroxy-acid dehydratase; Validated; Region: PRK06131 406425017629 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425017630 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425017631 inhibitor site; inhibition site 406425017632 active site 406425017633 dimer interface [polypeptide binding]; other site 406425017634 catalytic residue [active] 406425017635 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 406425017636 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 406425017637 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 406425017638 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 406425017639 ligand binding site [chemical binding]; other site 406425017640 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 406425017641 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425017642 Walker A/P-loop; other site 406425017643 ATP binding site [chemical binding]; other site 406425017644 Q-loop/lid; other site 406425017645 ABC transporter signature motif; other site 406425017646 Walker B; other site 406425017647 D-loop; other site 406425017648 H-loop/switch region; other site 406425017649 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425017650 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425017651 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425017652 TM-ABC transporter signature motif; other site 406425017653 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 406425017654 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425017655 MarR family; Region: MarR_2; pfam12802 406425017656 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 406425017657 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425017658 substrate binding site [chemical binding]; other site 406425017659 oxyanion hole (OAH) forming residues; other site 406425017660 trimer interface [polypeptide binding]; other site 406425017661 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425017662 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 406425017663 NAD(P) binding site [chemical binding]; other site 406425017664 catalytic residues [active] 406425017665 feruloyl-CoA synthase; Reviewed; Region: PRK08180 406425017666 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 406425017667 acyl-activating enzyme (AAE) consensus motif; other site 406425017668 putative AMP binding site [chemical binding]; other site 406425017669 putative active site [active] 406425017670 putative CoA binding site [chemical binding]; other site 406425017671 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 406425017672 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017673 putative substrate translocation pore; other site 406425017674 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425017675 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425017676 trimer interface [polypeptide binding]; other site 406425017677 eyelet of channel; other site 406425017678 Tannase and feruloyl esterase; Region: Tannase; pfam07519 406425017679 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425017680 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425017681 putative DNA binding site [nucleotide binding]; other site 406425017682 putative Zn2+ binding site [ion binding]; other site 406425017683 AsnC family; Region: AsnC_trans_reg; pfam01037 406425017684 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 406425017685 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425017686 catalytic residue [active] 406425017687 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425017688 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425017689 metal binding site [ion binding]; metal-binding site 406425017690 putative dimer interface [polypeptide binding]; other site 406425017691 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 406425017692 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 406425017693 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 406425017694 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425017695 Coenzyme A binding pocket [chemical binding]; other site 406425017696 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 406425017697 cytosine deaminase; Provisional; Region: PRK05985 406425017698 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 406425017699 active site 406425017700 cytosine deaminase; Provisional; Region: PRK05985 406425017701 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 406425017702 active site 406425017703 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425017704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017706 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425017707 dimerization interface [polypeptide binding]; other site 406425017708 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 406425017709 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425017710 substrate binding pocket [chemical binding]; other site 406425017711 membrane-bound complex binding site; other site 406425017712 hinge residues; other site 406425017713 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 406425017714 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 406425017715 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425017716 DNA-binding site [nucleotide binding]; DNA binding site 406425017717 UTRA domain; Region: UTRA; pfam07702 406425017718 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425017719 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425017720 non-specific DNA binding site [nucleotide binding]; other site 406425017721 salt bridge; other site 406425017722 sequence-specific DNA binding site [nucleotide binding]; other site 406425017723 Cupin domain; Region: Cupin_2; pfam07883 406425017724 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 406425017725 intersubunit interface [polypeptide binding]; other site 406425017726 active site 406425017727 Zn2+ binding site [ion binding]; other site 406425017728 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425017729 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425017730 inhibitor site; inhibition site 406425017731 active site 406425017732 dimer interface [polypeptide binding]; other site 406425017733 catalytic residue [active] 406425017734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 406425017735 MOSC domain; Region: MOSC; pfam03473 406425017736 3-alpha domain; Region: 3-alpha; pfam03475 406425017737 short chain dehydrogenase; Provisional; Region: PRK07023 406425017738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017739 NAD(P) binding site [chemical binding]; other site 406425017740 active site 406425017741 hypothetical protein; Provisional; Region: PRK11239 406425017742 Protein of unknown function, DUF480; Region: DUF480; pfam04337 406425017743 Secretory lipase; Region: LIP; pfam03583 406425017744 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 406425017745 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 406425017746 PRC-barrel domain; Region: PRC; pfam05239 406425017747 OsmC-like protein; Region: OsmC; cl00767 406425017748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017749 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425017750 NAD(P) binding site [chemical binding]; other site 406425017751 active site 406425017752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425017754 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425017755 putative effector binding pocket; other site 406425017756 dimerization interface [polypeptide binding]; other site 406425017757 Cupin domain; Region: Cupin_2; pfam07883 406425017758 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 406425017759 Uncharacterized conserved protein [Function unknown]; Region: COG2128 406425017760 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 406425017761 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425017762 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425017763 DNA binding residues [nucleotide binding] 406425017764 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 406425017765 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 406425017766 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 406425017767 AAA domain; Region: AAA_22; pfam13401 406425017768 H-NS histone family; Region: Histone_HNS; pfam00816 406425017769 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425017770 Haemagglutinin; Region: HIM; pfam05662 406425017771 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 406425017772 trimer interface [polypeptide binding]; other site 406425017773 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425017774 trimer interface [polypeptide binding]; other site 406425017775 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425017776 trimer interface [polypeptide binding]; other site 406425017777 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425017778 trimer interface [polypeptide binding]; other site 406425017779 YadA-like C-terminal region; Region: YadA; pfam03895 406425017780 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 406425017781 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 406425017782 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425017783 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425017784 substrate binding pocket [chemical binding]; other site 406425017785 membrane-bound complex binding site; other site 406425017786 hinge residues; other site 406425017787 PAS fold; Region: PAS_4; pfam08448 406425017788 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425017789 dimer interface [polypeptide binding]; other site 406425017790 phosphorylation site [posttranslational modification] 406425017791 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017792 ATP binding site [chemical binding]; other site 406425017793 Mg2+ binding site [ion binding]; other site 406425017794 G-X-G motif; other site 406425017795 Response regulator receiver domain; Region: Response_reg; pfam00072 406425017796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017797 active site 406425017798 phosphorylation site [posttranslational modification] 406425017799 intermolecular recognition site; other site 406425017800 dimerization interface [polypeptide binding]; other site 406425017801 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425017802 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017803 active site 406425017804 phosphorylation site [posttranslational modification] 406425017805 intermolecular recognition site; other site 406425017806 dimerization interface [polypeptide binding]; other site 406425017807 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425017808 DNA binding residues [nucleotide binding] 406425017809 dimerization interface [polypeptide binding]; other site 406425017810 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 406425017811 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 406425017812 FHIPEP family; Region: FHIPEP; pfam00771 406425017813 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 406425017814 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 406425017815 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 406425017816 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 406425017817 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 406425017818 flagellar motor switch protein FliN; Region: fliN; TIGR02480 406425017819 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 406425017820 flagellin; Reviewed; Region: PRK08869 406425017821 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 406425017822 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 406425017823 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425017824 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017825 active site 406425017826 phosphorylation site [posttranslational modification] 406425017827 intermolecular recognition site; other site 406425017828 dimerization interface [polypeptide binding]; other site 406425017829 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425017830 DNA binding site [nucleotide binding] 406425017831 CHASE2 domain; Region: CHASE2; cl01732 406425017832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425017833 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425017834 dimer interface [polypeptide binding]; other site 406425017835 phosphorylation site [posttranslational modification] 406425017836 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017837 ATP binding site [chemical binding]; other site 406425017838 Mg2+ binding site [ion binding]; other site 406425017839 G-X-G motif; other site 406425017840 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 406425017841 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 406425017842 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 406425017843 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 406425017844 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 406425017845 FliG C-terminal domain; Region: FliG_C; pfam01706 406425017846 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 406425017847 Flagellar assembly protein FliH; Region: FliH; pfam02108 406425017848 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 406425017849 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 406425017850 Walker A motif; other site 406425017851 ATP binding site [chemical binding]; other site 406425017852 Walker B motif; other site 406425017853 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 406425017854 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 406425017855 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 406425017856 Flagellar protein FliS; Region: FliS; cl00654 406425017857 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 406425017858 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 406425017859 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425017860 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425017861 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425017862 DNA binding residues [nucleotide binding] 406425017863 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425017864 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 406425017865 hypothetical protein; Validated; Region: PRK06778 406425017866 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 406425017867 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425017868 ligand binding site [chemical binding]; other site 406425017869 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 406425017870 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 406425017871 SAF-like; Region: SAF_2; pfam13144 406425017872 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 406425017873 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 406425017874 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 406425017875 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 406425017876 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 406425017877 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 406425017878 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 406425017879 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 406425017880 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 406425017881 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 406425017882 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 406425017883 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 406425017884 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 406425017885 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 406425017886 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 406425017887 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 406425017888 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 406425017889 Flagellar L-ring protein; Region: FlgH; pfam02107 406425017890 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 406425017891 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 406425017892 Rod binding protein; Region: Rod-binding; cl01626 406425017893 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 406425017894 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 406425017895 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 406425017896 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 406425017897 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 406425017898 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 406425017899 putative fimbrial protein TcfA; Provisional; Region: PRK15308 406425017900 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425017901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017902 active site 406425017903 phosphorylation site [posttranslational modification] 406425017904 intermolecular recognition site; other site 406425017905 dimerization interface [polypeptide binding]; other site 406425017906 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425017907 dimerization interface [polypeptide binding]; other site 406425017908 DNA binding residues [nucleotide binding] 406425017909 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425017910 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425017911 dimer interface [polypeptide binding]; other site 406425017912 phosphorylation site [posttranslational modification] 406425017913 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017914 ATP binding site [chemical binding]; other site 406425017915 Mg2+ binding site [ion binding]; other site 406425017916 G-X-G motif; other site 406425017917 Response regulator receiver domain; Region: Response_reg; pfam00072 406425017918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017919 active site 406425017920 phosphorylation site [posttranslational modification] 406425017921 intermolecular recognition site; other site 406425017922 dimerization interface [polypeptide binding]; other site 406425017923 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425017924 active site 1 [active] 406425017925 dimer interface [polypeptide binding]; other site 406425017926 hexamer interface [polypeptide binding]; other site 406425017927 active site 2 [active] 406425017928 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425017929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017930 active site 406425017931 phosphorylation site [posttranslational modification] 406425017932 intermolecular recognition site; other site 406425017933 dimerization interface [polypeptide binding]; other site 406425017934 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425017935 DNA binding residues [nucleotide binding] 406425017936 dimerization interface [polypeptide binding]; other site 406425017937 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425017938 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425017939 substrate binding pocket [chemical binding]; other site 406425017940 membrane-bound complex binding site; other site 406425017941 hinge residues; other site 406425017942 PAS fold; Region: PAS_4; pfam08448 406425017943 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425017944 putative active site [active] 406425017945 heme pocket [chemical binding]; other site 406425017946 PAS fold; Region: PAS_3; pfam08447 406425017947 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425017948 dimer interface [polypeptide binding]; other site 406425017949 phosphorylation site [posttranslational modification] 406425017950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017951 ATP binding site [chemical binding]; other site 406425017952 Mg2+ binding site [ion binding]; other site 406425017953 G-X-G motif; other site 406425017954 Response regulator receiver domain; Region: Response_reg; pfam00072 406425017955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017956 active site 406425017957 phosphorylation site [posttranslational modification] 406425017958 intermolecular recognition site; other site 406425017959 dimerization interface [polypeptide binding]; other site 406425017960 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425017961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017962 active site 406425017963 phosphorylation site [posttranslational modification] 406425017964 intermolecular recognition site; other site 406425017965 dimerization interface [polypeptide binding]; other site 406425017966 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425017967 DNA binding residues [nucleotide binding] 406425017968 dimerization interface [polypeptide binding]; other site 406425017969 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 406425017970 trimer interface [polypeptide binding]; other site 406425017971 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 406425017972 trimer interface [polypeptide binding]; other site 406425017973 YadA-like C-terminal region; Region: YadA; pfam03895 406425017974 Phage integrase protein; Region: DUF3701; pfam12482 406425017975 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 406425017976 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 406425017977 Int/Topo IB signature motif; other site 406425017978 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425017979 Transposase; Region: HTH_Tnp_1; pfam01527 406425017980 putative transposase OrfB; Reviewed; Region: PHA02517 406425017981 HTH-like domain; Region: HTH_21; pfam13276 406425017982 Integrase core domain; Region: rve; pfam00665 406425017983 Integrase core domain; Region: rve_2; pfam13333 406425017984 carbon starvation protein A; Provisional; Region: PRK15015 406425017985 Carbon starvation protein CstA; Region: CstA; pfam02554 406425017986 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 406425017987 Protein of unknown function (DUF466); Region: DUF466; pfam04328 406425017988 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 406425017989 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 406425017990 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017991 putative substrate translocation pore; other site 406425017992 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 406425017993 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 406425017994 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 406425017995 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425017996 FeS/SAM binding site; other site 406425017997 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 406425017998 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 406425017999 LytB protein; Region: LYTB; pfam02401 406425018000 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 406425018001 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 406425018002 active site 406425018003 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425018004 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 406425018005 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 406425018006 putative NADP binding site [chemical binding]; other site 406425018007 putative substrate binding site [chemical binding]; other site 406425018008 active site 406425018009 acylphosphatase; Provisional; Region: PRK14424 406425018010 Predicted permeases [General function prediction only]; Region: RarD; COG2962 406425018011 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 406425018012 OpgC protein; Region: OpgC_C; pfam10129 406425018013 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 406425018014 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018015 putative substrate translocation pore; other site 406425018016 POT family; Region: PTR2; cl17359 406425018017 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 406425018018 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425018019 non-specific DNA binding site [nucleotide binding]; other site 406425018020 salt bridge; other site 406425018021 sequence-specific DNA binding site [nucleotide binding]; other site 406425018022 Cupin domain; Region: Cupin_2; pfam07883 406425018023 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 406425018024 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 406425018025 peptide binding site [polypeptide binding]; other site 406425018026 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 406425018027 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425018028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425018029 ABC-ATPase subunit interface; other site 406425018030 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 406425018031 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 406425018032 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425018033 dimer interface [polypeptide binding]; other site 406425018034 conserved gate region; other site 406425018035 putative PBP binding loops; other site 406425018036 ABC-ATPase subunit interface; other site 406425018037 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 406425018038 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425018039 Walker A/P-loop; other site 406425018040 ATP binding site [chemical binding]; other site 406425018041 Q-loop/lid; other site 406425018042 ABC transporter signature motif; other site 406425018043 Walker B; other site 406425018044 D-loop; other site 406425018045 H-loop/switch region; other site 406425018046 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425018047 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 406425018048 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425018049 Walker A/P-loop; other site 406425018050 ATP binding site [chemical binding]; other site 406425018051 Q-loop/lid; other site 406425018052 ABC transporter signature motif; other site 406425018053 Walker B; other site 406425018054 D-loop; other site 406425018055 H-loop/switch region; other site 406425018056 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425018057 outer membrane porin, OprD family; Region: OprD; pfam03573 406425018058 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 406425018059 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 406425018060 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 406425018061 active site residue [active] 406425018062 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425018063 Phosphoesterase family; Region: Phosphoesterase; pfam04185 406425018064 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425018065 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425018066 putative acetyltransferase YhhY; Provisional; Region: PRK10140 406425018067 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425018068 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 406425018069 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425018070 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425018071 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 406425018072 PAS fold; Region: PAS_4; pfam08448 406425018073 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425018074 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425018075 Walker B motif; other site 406425018076 arginine finger; other site 406425018077 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425018078 H-NS histone family; Region: Histone_HNS; pfam00816 406425018079 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425018080 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 406425018081 CoA binding domain; Region: CoA_binding_2; pfam13380 406425018082 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 406425018083 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425018084 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425018085 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425018086 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 406425018087 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425018088 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 406425018089 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425018090 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 406425018091 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425018092 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 406425018093 CGNR zinc finger; Region: zf-CGNR; pfam11706 406425018094 Propionate catabolism activator; Region: PrpR_N; pfam06506 406425018095 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 406425018096 PAS domain; Region: PAS; smart00091 406425018097 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425018098 Walker A motif; other site 406425018099 ATP binding site [chemical binding]; other site 406425018100 Walker B motif; other site 406425018101 arginine finger; other site 406425018102 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 406425018103 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 406425018104 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425018105 tetramer interface [polypeptide binding]; other site 406425018106 active site 406425018107 Mg2+/Mn2+ binding site [ion binding]; other site 406425018108 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 406425018109 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 406425018110 dimer interface [polypeptide binding]; other site 406425018111 active site 406425018112 citrylCoA binding site [chemical binding]; other site 406425018113 oxalacetate/citrate binding site [chemical binding]; other site 406425018114 coenzyme A binding site [chemical binding]; other site 406425018115 catalytic triad [active] 406425018116 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 406425018117 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 406425018118 substrate binding site [chemical binding]; other site 406425018119 ligand binding site [chemical binding]; other site 406425018120 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 406425018121 substrate binding site [chemical binding]; other site 406425018122 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 406425018123 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425018124 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425018125 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425018126 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425018127 active site 406425018128 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425018129 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018130 putative substrate translocation pore; other site 406425018131 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425018132 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425018133 trimer interface [polypeptide binding]; other site 406425018134 eyelet of channel; other site 406425018135 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425018136 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 406425018137 substrate binding site [chemical binding]; other site 406425018138 oxyanion hole (OAH) forming residues; other site 406425018139 trimer interface [polypeptide binding]; other site 406425018140 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425018141 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425018142 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 406425018143 enoyl-CoA hydratase; Provisional; Region: PRK09245 406425018144 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425018145 substrate binding site [chemical binding]; other site 406425018146 oxyanion hole (OAH) forming residues; other site 406425018147 trimer interface [polypeptide binding]; other site 406425018148 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 406425018149 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425018150 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425018151 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425018152 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425018153 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 406425018154 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425018155 CoenzymeA binding site [chemical binding]; other site 406425018156 subunit interaction site [polypeptide binding]; other site 406425018157 PHB binding site; other site 406425018158 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 406425018159 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 406425018160 dimer interface [polypeptide binding]; other site 406425018161 ligand binding site [chemical binding]; other site 406425018162 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425018163 dimer interface [polypeptide binding]; other site 406425018164 putative CheW interface [polypeptide binding]; other site 406425018165 dimerization interface [polypeptide binding]; other site 406425018166 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 406425018167 putative active cleft [active] 406425018168 MgtC family; Region: MgtC; pfam02308 406425018169 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425018170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425018171 Coenzyme A binding pocket [chemical binding]; other site 406425018172 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 406425018173 metal-binding site [ion binding] 406425018174 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 406425018175 metal-binding site [ion binding] 406425018176 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 406425018177 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 406425018178 metal-binding site [ion binding] 406425018179 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 406425018180 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425018181 motif II; other site 406425018182 Uncharacterized conserved protein [Function unknown]; Region: COG5361 406425018183 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 406425018184 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 406425018185 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 406425018186 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 406425018187 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 406425018188 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 406425018189 Sulfatase; Region: Sulfatase; cl17466 406425018190 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 406425018191 Sulfatase; Region: Sulfatase; cl17466 406425018192 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425018193 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018194 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425018195 dimerization interface [polypeptide binding]; other site 406425018196 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425018197 dimer interface [polypeptide binding]; other site 406425018198 conserved gate region; other site 406425018199 putative PBP binding loops; other site 406425018200 ABC-ATPase subunit interface; other site 406425018201 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 406425018202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425018203 Walker A/P-loop; other site 406425018204 ATP binding site [chemical binding]; other site 406425018205 Q-loop/lid; other site 406425018206 ABC transporter signature motif; other site 406425018207 Walker B; other site 406425018208 D-loop; other site 406425018209 H-loop/switch region; other site 406425018210 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 406425018211 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 406425018212 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 406425018213 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425018214 dimer interface [polypeptide binding]; other site 406425018215 conserved gate region; other site 406425018216 putative PBP binding loops; other site 406425018217 ABC-ATPase subunit interface; other site 406425018218 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 406425018219 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 406425018220 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 406425018221 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 406425018222 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 406425018223 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 406425018224 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 406425018225 tetramer interface [polypeptide binding]; other site 406425018226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425018227 catalytic residue [active] 406425018228 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 406425018229 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 406425018230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018231 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 406425018232 putative dimerization interface [polypeptide binding]; other site 406425018233 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425018234 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 406425018235 active site residue [active] 406425018236 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425018237 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 406425018238 C-terminal domain interface [polypeptide binding]; other site 406425018239 GSH binding site (G-site) [chemical binding]; other site 406425018240 dimer interface [polypeptide binding]; other site 406425018241 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 406425018242 N-terminal domain interface [polypeptide binding]; other site 406425018243 dimer interface [polypeptide binding]; other site 406425018244 substrate binding pocket (H-site) [chemical binding]; other site 406425018245 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 406425018246 active site 406425018247 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018248 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425018249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018251 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425018252 putative effector binding pocket; other site 406425018253 dimerization interface [polypeptide binding]; other site 406425018254 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 406425018255 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 406425018256 putative catalytic residue [active] 406425018257 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425018258 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425018259 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425018260 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 406425018261 active site 406425018262 catalytic residues [active] 406425018263 metal binding site [ion binding]; metal-binding site 406425018264 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425018265 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425018266 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425018267 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018268 putative substrate translocation pore; other site 406425018269 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425018270 Amidohydrolase; Region: Amidohydro_2; pfam04909 406425018271 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 406425018272 putative hydrophobic ligand binding site [chemical binding]; other site 406425018273 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 406425018274 putative hydrophobic ligand binding site [chemical binding]; other site 406425018275 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425018276 dimerization interface [polypeptide binding]; other site 406425018277 putative DNA binding site [nucleotide binding]; other site 406425018278 putative Zn2+ binding site [ion binding]; other site 406425018279 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 406425018280 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 406425018281 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425018282 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425018283 short chain dehydrogenase; Validated; Region: PRK08264 406425018284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018285 NAD(P) binding site [chemical binding]; other site 406425018286 active site 406425018287 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 406425018288 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 406425018289 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 406425018290 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 406425018291 Predicted transcriptional regulators [Transcription]; Region: COG1510 406425018292 MarR family; Region: MarR_2; pfam12802 406425018293 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 406425018294 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425018295 putative NAD(P) binding site [chemical binding]; other site 406425018296 active site 406425018297 DoxX-like family; Region: DoxX_3; pfam13781 406425018298 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 406425018299 Protein of unknown function, DUF393; Region: DUF393; pfam04134 406425018300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018301 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 406425018302 NAD(P) binding site [chemical binding]; other site 406425018303 active site 406425018304 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425018305 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 406425018306 putative C-terminal domain interface [polypeptide binding]; other site 406425018307 putative GSH binding site (G-site) [chemical binding]; other site 406425018308 putative dimer interface [polypeptide binding]; other site 406425018309 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 406425018310 putative N-terminal domain interface [polypeptide binding]; other site 406425018311 putative dimer interface [polypeptide binding]; other site 406425018312 putative substrate binding pocket (H-site) [chemical binding]; other site 406425018313 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 406425018314 Beta-lactamase; Region: Beta-lactamase; pfam00144 406425018315 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 406425018316 HIT family signature motif; other site 406425018317 catalytic residue [active] 406425018318 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 406425018319 hypothetical protein; Provisional; Region: PRK11171 406425018320 Cupin domain; Region: Cupin_2; pfam07883 406425018321 Cupin domain; Region: Cupin_2; pfam07883 406425018322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018324 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 406425018325 putative substrate binding pocket [chemical binding]; other site 406425018326 putative dimerization interface [polypeptide binding]; other site 406425018327 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 406425018328 Transglycosylase; Region: Transgly; pfam00912 406425018329 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 406425018330 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 406425018331 Predicted membrane protein [Function unknown]; Region: COG2860 406425018332 UPF0126 domain; Region: UPF0126; pfam03458 406425018333 UPF0126 domain; Region: UPF0126; pfam03458 406425018334 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 406425018335 active site 406425018336 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 406425018337 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425018338 Walker A/P-loop; other site 406425018339 ATP binding site [chemical binding]; other site 406425018340 Q-loop/lid; other site 406425018341 ABC transporter signature motif; other site 406425018342 Walker B; other site 406425018343 D-loop; other site 406425018344 H-loop/switch region; other site 406425018345 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 406425018346 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425018347 putative PBP binding regions; other site 406425018348 ABC-ATPase subunit interface; other site 406425018349 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 406425018350 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 406425018351 intersubunit interface [polypeptide binding]; other site 406425018352 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 406425018353 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 406425018354 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 406425018355 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 406425018356 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425018357 N-terminal plug; other site 406425018358 ligand-binding site [chemical binding]; other site 406425018359 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 406425018360 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425018361 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425018362 trimer interface [polypeptide binding]; other site 406425018363 eyelet of channel; other site 406425018364 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 406425018365 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 406425018366 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 406425018367 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 406425018368 active site 406425018369 Zn binding site [ion binding]; other site 406425018370 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425018371 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425018372 substrate binding pocket [chemical binding]; other site 406425018373 membrane-bound complex binding site; other site 406425018374 hinge residues; other site 406425018375 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425018376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018377 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425018378 dimerization interface [polypeptide binding]; other site 406425018379 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 406425018380 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425018381 conserved cys residue [active] 406425018382 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018384 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 406425018385 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 406425018386 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 406425018387 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425018388 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425018389 Methyltransferase domain; Region: Methyltransf_24; pfam13578 406425018390 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 406425018391 Putative cyclase; Region: Cyclase; pfam04199 406425018392 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425018393 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425018394 FMN binding site [chemical binding]; other site 406425018395 active site 406425018396 substrate binding site [chemical binding]; other site 406425018397 catalytic residue [active] 406425018398 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425018399 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425018400 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425018401 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425018402 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425018403 active site 406425018404 catalytic tetrad [active] 406425018405 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 406425018406 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425018407 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 406425018408 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425018409 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018410 putative substrate translocation pore; other site 406425018411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018413 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 406425018414 putative effector binding pocket; other site 406425018415 dimerization interface [polypeptide binding]; other site 406425018416 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 406425018417 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 406425018418 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 406425018419 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425018420 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425018421 short chain dehydrogenase; Provisional; Region: PRK06180 406425018422 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425018423 NADP binding site [chemical binding]; other site 406425018424 active site 406425018425 steroid binding site; other site 406425018426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018428 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425018429 dimerization interface [polypeptide binding]; other site 406425018430 Beta-lactamase; Region: Beta-lactamase; pfam00144 406425018431 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 406425018432 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 406425018433 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 406425018434 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 406425018435 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 406425018436 NADP binding site [chemical binding]; other site 406425018437 dimer interface [polypeptide binding]; other site 406425018438 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425018439 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425018440 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425018441 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425018442 hypothetical protein; Validated; Region: PRK06201 406425018443 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 406425018444 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 406425018445 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 406425018446 ligand binding site [chemical binding]; other site 406425018447 NAD binding site [chemical binding]; other site 406425018448 dimerization interface [polypeptide binding]; other site 406425018449 catalytic site [active] 406425018450 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 406425018451 Strictosidine synthase; Region: Str_synth; pfam03088 406425018452 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425018453 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018454 putative substrate translocation pore; other site 406425018455 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425018456 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425018457 trimer interface [polypeptide binding]; other site 406425018458 eyelet of channel; other site 406425018459 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425018460 Amidohydrolase; Region: Amidohydro_2; pfam04909 406425018461 benzoate transport; Region: 2A0115; TIGR00895 406425018462 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018463 putative substrate translocation pore; other site 406425018464 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425018465 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425018466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018467 putative substrate translocation pore; other site 406425018468 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425018469 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425018470 active site 406425018471 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018473 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 406425018474 putative effector binding pocket; other site 406425018475 putative dimerization interface [polypeptide binding]; other site 406425018476 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 406425018477 putative NAD(P) binding site [chemical binding]; other site 406425018478 homodimer interface [polypeptide binding]; other site 406425018479 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425018480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018482 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425018483 putative effector binding pocket; other site 406425018484 putative dimerization interface [polypeptide binding]; other site 406425018485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018487 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425018488 putative effector binding pocket; other site 406425018489 putative dimerization interface [polypeptide binding]; other site 406425018490 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 406425018491 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018492 putative substrate translocation pore; other site 406425018493 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425018494 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425018495 catalytic loop [active] 406425018496 iron binding site [ion binding]; other site 406425018497 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425018498 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425018499 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425018500 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 406425018501 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425018502 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425018503 Cytochrome c; Region: Cytochrom_C; pfam00034 406425018504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018506 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425018507 putative effector binding pocket; other site 406425018508 dimerization interface [polypeptide binding]; other site 406425018509 classical (c) SDRs; Region: SDR_c; cd05233 406425018510 short chain dehydrogenase; Provisional; Region: PRK07041 406425018511 NAD(P) binding site [chemical binding]; other site 406425018512 active site 406425018513 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425018514 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425018515 FMN binding site [chemical binding]; other site 406425018516 active site 406425018517 substrate binding site [chemical binding]; other site 406425018518 catalytic residue [active] 406425018519 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425018520 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425018521 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425018522 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425018523 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425018524 metal binding site [ion binding]; metal-binding site 406425018525 putative dimer interface [polypeptide binding]; other site 406425018526 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018527 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425018528 putative substrate translocation pore; other site 406425018529 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425018530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018531 LysR substrate binding domain; Region: LysR_substrate; pfam03466 406425018532 dimerization interface [polypeptide binding]; other site 406425018533 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 406425018534 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425018535 substrate binding pocket [chemical binding]; other site 406425018536 membrane-bound complex binding site; other site 406425018537 hinge residues; other site 406425018538 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 406425018539 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 406425018540 active site 406425018541 Zn binding site [ion binding]; other site 406425018542 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 406425018543 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425018544 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425018545 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 406425018546 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425018547 dimer interface [polypeptide binding]; other site 406425018548 active site 406425018549 Uncharacterized conserved protein [Function unknown]; Region: COG1683 406425018550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425018551 Coenzyme A binding pocket [chemical binding]; other site 406425018552 Methyltransferase domain; Region: Methyltransf_31; pfam13847 406425018553 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425018554 S-adenosylmethionine binding site [chemical binding]; other site 406425018555 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425018556 PAS domain; Region: PAS_9; pfam13426 406425018557 putative active site [active] 406425018558 heme pocket [chemical binding]; other site 406425018559 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425018560 dimerization interface [polypeptide binding]; other site 406425018561 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425018562 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425018563 dimer interface [polypeptide binding]; other site 406425018564 putative CheW interface [polypeptide binding]; other site 406425018565 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425018566 PAS domain; Region: PAS_9; pfam13426 406425018567 putative active site [active] 406425018568 heme pocket [chemical binding]; other site 406425018569 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425018570 dimerization interface [polypeptide binding]; other site 406425018571 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425018572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425018573 dimer interface [polypeptide binding]; other site 406425018574 putative CheW interface [polypeptide binding]; other site 406425018575 succinic semialdehyde dehydrogenase; Region: PLN02278 406425018576 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 406425018577 tetramerization interface [polypeptide binding]; other site 406425018578 NAD(P) binding site [chemical binding]; other site 406425018579 catalytic residues [active] 406425018580 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 406425018581 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425018582 inhibitor-cofactor binding pocket; inhibition site 406425018583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425018584 catalytic residue [active] 406425018585 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425018586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425018587 DNA-binding site [nucleotide binding]; DNA binding site 406425018588 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425018589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425018590 homodimer interface [polypeptide binding]; other site 406425018591 catalytic residue [active] 406425018592 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 406425018593 selenophosphate synthetase; Provisional; Region: PRK00943 406425018594 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 406425018595 dimerization interface [polypeptide binding]; other site 406425018596 putative ATP binding site [chemical binding]; other site 406425018597 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425018598 Purine nucleoside permease (NUP); Region: NUP; pfam06516 406425018599 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425018600 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018601 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018602 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425018603 putative effector binding pocket; other site 406425018604 putative dimerization interface [polypeptide binding]; other site 406425018605 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 406425018606 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425018607 substrate binding pocket [chemical binding]; other site 406425018608 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425018609 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425018610 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425018611 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 406425018612 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425018613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018615 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425018616 dimerization interface [polypeptide binding]; other site 406425018617 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425018618 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425018619 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425018620 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 406425018621 catalytic site [active] 406425018622 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 406425018623 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425018624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425018625 active site 406425018626 phosphorylation site [posttranslational modification] 406425018627 intermolecular recognition site; other site 406425018628 dimerization interface [polypeptide binding]; other site 406425018629 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425018630 Walker A motif; other site 406425018631 ATP binding site [chemical binding]; other site 406425018632 Walker B motif; other site 406425018633 arginine finger; other site 406425018634 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425018635 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 406425018636 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425018637 dimer interface [polypeptide binding]; other site 406425018638 phosphorylation site [posttranslational modification] 406425018639 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425018640 ATP binding site [chemical binding]; other site 406425018641 Mg2+ binding site [ion binding]; other site 406425018642 G-X-G motif; other site 406425018643 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 406425018644 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 406425018645 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 406425018646 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425018647 active site 406425018648 non-prolyl cis peptide bond; other site 406425018649 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 406425018650 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 406425018651 Walker A/P-loop; other site 406425018652 ATP binding site [chemical binding]; other site 406425018653 Q-loop/lid; other site 406425018654 ABC transporter signature motif; other site 406425018655 Walker B; other site 406425018656 D-loop; other site 406425018657 H-loop/switch region; other site 406425018658 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 406425018659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425018660 dimer interface [polypeptide binding]; other site 406425018661 conserved gate region; other site 406425018662 ABC-ATPase subunit interface; other site 406425018663 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 406425018664 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 406425018665 Flavin binding site [chemical binding]; other site 406425018666 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 406425018667 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 406425018668 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 406425018669 putative GTP cyclohydrolase; Provisional; Region: PRK13674 406425018670 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 406425018671 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 406425018672 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 406425018673 trimer interface [polypeptide binding]; other site 406425018674 active site 406425018675 dihydroorotase; Validated; Region: PRK09060 406425018676 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425018677 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 406425018678 active site 406425018679 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425018680 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425018681 putative DNA binding site [nucleotide binding]; other site 406425018682 putative Zn2+ binding site [ion binding]; other site 406425018683 AsnC family; Region: AsnC_trans_reg; pfam01037 406425018684 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425018685 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425018686 non-specific DNA binding site [nucleotide binding]; other site 406425018687 salt bridge; other site 406425018688 sequence-specific DNA binding site [nucleotide binding]; other site 406425018689 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 406425018690 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 406425018691 Peptidase family M50; Region: Peptidase_M50; pfam02163 406425018692 active site 406425018693 putative substrate binding region [chemical binding]; other site 406425018694 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018695 D-galactonate transporter; Region: 2A0114; TIGR00893 406425018696 putative substrate translocation pore; other site 406425018697 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018698 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 406425018699 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 406425018700 dimer interface [polypeptide binding]; other site 406425018701 NADP binding site [chemical binding]; other site 406425018702 catalytic residues [active] 406425018703 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 406425018704 putative active site [active] 406425018705 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 406425018706 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425018707 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 406425018708 putative active site [active] 406425018709 catalytic residue [active] 406425018710 galactarate dehydratase; Region: galactar-dH20; TIGR03248 406425018711 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 406425018712 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 406425018713 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425018714 dimerization interface [polypeptide binding]; other site 406425018715 putative DNA binding site [nucleotide binding]; other site 406425018716 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425018717 putative Zn2+ binding site [ion binding]; other site 406425018718 AsnC family; Region: AsnC_trans_reg; pfam01037 406425018719 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425018720 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425018721 dimerization interface [polypeptide binding]; other site 406425018722 ligand binding site [chemical binding]; other site 406425018723 Polypeptide deformylase; Region: Pep_deformylase; pfam01327 406425018724 active site 406425018725 catalytic residues [active] 406425018726 metal binding site [ion binding]; metal-binding site 406425018727 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 406425018728 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 406425018729 homodimer interface [polypeptide binding]; other site 406425018730 substrate-cofactor binding pocket; other site 406425018731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425018732 catalytic residue [active] 406425018733 SnoaL-like domain; Region: SnoaL_2; pfam12680 406425018734 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 406425018735 Predicted membrane protein [Function unknown]; Region: COG2259 406425018736 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425018737 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018738 putative substrate translocation pore; other site 406425018739 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425018740 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425018741 dimerization interface [polypeptide binding]; other site 406425018742 ligand binding site [chemical binding]; other site 406425018743 PAS fold; Region: PAS_4; pfam08448 406425018744 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425018745 putative active site [active] 406425018746 heme pocket [chemical binding]; other site 406425018747 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425018748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018750 SPRY-associated domain; Region: PRY; cl02686 406425018751 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425018752 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 406425018753 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 406425018754 dimer interface [polypeptide binding]; other site 406425018755 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 406425018756 active site 406425018757 Fe binding site [ion binding]; other site 406425018758 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 406425018759 Dehydroquinase class II; Region: DHquinase_II; pfam01220 406425018760 active site 406425018761 trimer interface [polypeptide binding]; other site 406425018762 dimer interface [polypeptide binding]; other site 406425018763 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 406425018764 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 406425018765 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 406425018766 shikimate binding site; other site 406425018767 NAD(P) binding site [chemical binding]; other site 406425018768 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018769 D-galactonate transporter; Region: 2A0114; TIGR00893 406425018770 putative substrate translocation pore; other site 406425018771 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 406425018772 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425018773 catalytic residue [active] 406425018774 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 406425018775 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425018776 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 406425018777 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425018778 Walker A/P-loop; other site 406425018779 ATP binding site [chemical binding]; other site 406425018780 Q-loop/lid; other site 406425018781 ABC transporter signature motif; other site 406425018782 Walker B; other site 406425018783 D-loop; other site 406425018784 H-loop/switch region; other site 406425018785 TOBE domain; Region: TOBE_2; pfam08402 406425018786 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 406425018787 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425018788 dimer interface [polypeptide binding]; other site 406425018789 conserved gate region; other site 406425018790 putative PBP binding loops; other site 406425018791 ABC-ATPase subunit interface; other site 406425018792 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425018793 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425018794 conserved gate region; other site 406425018795 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 406425018796 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 406425018797 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 406425018798 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 406425018799 NAD(P) binding site [chemical binding]; other site 406425018800 catalytic residues [active] 406425018801 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 406425018802 putative transporter; Provisional; Region: PRK10504 406425018803 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018804 putative substrate translocation pore; other site 406425018805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3826 406425018806 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 406425018807 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 406425018808 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 406425018809 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 406425018810 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 406425018811 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 406425018812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018813 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 406425018814 putative dimerization interface [polypeptide binding]; other site 406425018815 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 406425018816 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 406425018817 THF binding site; other site 406425018818 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 406425018819 substrate binding site [chemical binding]; other site 406425018820 THF binding site; other site 406425018821 zinc-binding site [ion binding]; other site 406425018822 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425018823 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018824 putative substrate translocation pore; other site 406425018825 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 406425018826 agmatinase; Region: agmatinase; TIGR01230 406425018827 oligomer interface [polypeptide binding]; other site 406425018828 putative active site [active] 406425018829 Mn binding site [ion binding]; other site 406425018830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018832 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425018833 dimerization interface [polypeptide binding]; other site 406425018834 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425018835 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425018836 putative DNA binding site [nucleotide binding]; other site 406425018837 putative Zn2+ binding site [ion binding]; other site 406425018838 AsnC family; Region: AsnC_trans_reg; pfam01037 406425018839 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425018840 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 406425018841 peptidase domain interface [polypeptide binding]; other site 406425018842 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 406425018843 active site 406425018844 catalytic triad [active] 406425018845 calcium binding site [ion binding]; other site 406425018846 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 406425018847 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 406425018848 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 406425018849 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 406425018850 homodimer interface [polypeptide binding]; other site 406425018851 NAD binding pocket [chemical binding]; other site 406425018852 ATP binding pocket [chemical binding]; other site 406425018853 Mg binding site [ion binding]; other site 406425018854 active-site loop [active] 406425018855 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 406425018856 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 406425018857 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 406425018858 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 406425018859 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 406425018860 putative active site [active] 406425018861 catalytic site [active] 406425018862 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 406425018863 putative active site [active] 406425018864 catalytic site [active] 406425018865 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425018866 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425018867 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425018868 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425018869 lysine transporter; Provisional; Region: PRK10836 406425018870 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 406425018871 aldehyde dehydrogenase family 7 member; Region: PLN02315 406425018872 tetrameric interface [polypeptide binding]; other site 406425018873 NAD binding site [chemical binding]; other site 406425018874 catalytic residues [active] 406425018875 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 406425018876 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 406425018877 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 406425018878 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 406425018879 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 406425018880 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 406425018881 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425018882 Walker A/P-loop; other site 406425018883 ATP binding site [chemical binding]; other site 406425018884 Q-loop/lid; other site 406425018885 ABC transporter signature motif; other site 406425018886 Walker B; other site 406425018887 D-loop; other site 406425018888 H-loop/switch region; other site 406425018889 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 406425018890 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425018891 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425018892 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 406425018893 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 406425018894 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 406425018895 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425018896 benzoate transport; Region: 2A0115; TIGR00895 406425018897 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018898 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018899 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425018900 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425018901 trimer interface [polypeptide binding]; other site 406425018902 eyelet of channel; other site 406425018903 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 406425018904 active site 406425018905 tetramer interface [polypeptide binding]; other site 406425018906 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018907 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425018908 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425018909 dimerization interface [polypeptide binding]; other site 406425018910 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 406425018911 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 406425018912 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425018913 active site 406425018914 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 406425018915 Transglycosylase; Region: Transgly; pfam00912 406425018916 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 406425018917 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425018918 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425018919 DNA-binding site [nucleotide binding]; DNA binding site 406425018920 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425018921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425018922 homodimer interface [polypeptide binding]; other site 406425018923 catalytic residue [active] 406425018924 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 406425018925 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 406425018926 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425018927 catalytic residues [active] 406425018928 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425018929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425018930 active site 406425018931 phosphorylation site [posttranslational modification] 406425018932 intermolecular recognition site; other site 406425018933 dimerization interface [polypeptide binding]; other site 406425018934 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425018935 DNA binding site [nucleotide binding] 406425018936 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425018937 dimerization interface [polypeptide binding]; other site 406425018938 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425018939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425018940 ATP binding site [chemical binding]; other site 406425018941 Mg2+ binding site [ion binding]; other site 406425018942 G-X-G motif; other site 406425018943 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425018944 TAP-like protein; Region: Abhydrolase_4; pfam08386 406425018945 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 406425018946 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425018947 active site 406425018948 metal binding site [ion binding]; metal-binding site 406425018949 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 406425018950 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425018951 Coenzyme A binding pocket [chemical binding]; other site 406425018952 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425018953 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425018954 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425018955 trimer interface [polypeptide binding]; other site 406425018956 eyelet of channel; other site 406425018957 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 406425018958 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425018959 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425018960 N-terminal plug; other site 406425018961 ligand-binding site [chemical binding]; other site 406425018962 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 406425018963 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 406425018964 FMN-binding pocket [chemical binding]; other site 406425018965 flavin binding motif; other site 406425018966 phosphate binding motif [ion binding]; other site 406425018967 beta-alpha-beta structure motif; other site 406425018968 NAD binding pocket [chemical binding]; other site 406425018969 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425018970 catalytic loop [active] 406425018971 iron binding site [ion binding]; other site 406425018972 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425018973 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 406425018974 iron-sulfur cluster [ion binding]; other site 406425018975 [2Fe-2S] cluster binding site [ion binding]; other site 406425018976 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 406425018977 alpha subunit interface [polypeptide binding]; other site 406425018978 active site 406425018979 substrate binding site [chemical binding]; other site 406425018980 Fe binding site [ion binding]; other site 406425018981 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425018982 MarR family; Region: MarR; pfam01047 406425018983 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425018984 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425018985 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 406425018986 isovaleryl-CoA dehydrogenase; Region: PLN02519 406425018987 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 406425018988 substrate binding site [chemical binding]; other site 406425018989 FAD binding site [chemical binding]; other site 406425018990 catalytic base [active] 406425018991 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 406425018992 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 406425018993 enoyl-CoA hydratase; Provisional; Region: PRK05995 406425018994 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425018995 substrate binding site [chemical binding]; other site 406425018996 oxyanion hole (OAH) forming residues; other site 406425018997 trimer interface [polypeptide binding]; other site 406425018998 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 406425018999 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425019000 ATP-grasp domain; Region: ATP-grasp_4; cl17255 406425019001 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 406425019002 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 406425019003 carboxyltransferase (CT) interaction site; other site 406425019004 biotinylation site [posttranslational modification]; other site 406425019005 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425019006 Phosphoesterase family; Region: Phosphoesterase; pfam04185 406425019007 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425019008 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425019009 galactosyl transferase GMA12/MNN10 family; Region: Glyco_transf_34; cl05288 406425019010 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 406425019011 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425019012 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 406425019013 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 406425019014 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 406425019015 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 406425019016 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 406425019017 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 406425019018 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425019019 ligand binding site [chemical binding]; other site 406425019020 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425019021 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425019022 trimer interface [polypeptide binding]; other site 406425019023 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 406425019024 YadA-like C-terminal region; Region: YadA; pfam03895 406425019025 Helix-turn-helix domain; Region: HTH_36; pfam13730 406425019026 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425019027 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 406425019028 Walker A motif; other site 406425019029 ATP binding site [chemical binding]; other site 406425019030 Walker B motif; other site 406425019031 arginine finger; other site 406425019032 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425019033 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425019034 non-specific DNA binding site [nucleotide binding]; other site 406425019035 salt bridge; other site 406425019036 sequence-specific DNA binding site [nucleotide binding]; other site 406425019037 head completion protein; Provisional; Region: 4; PHA02552 406425019038 Transposase; Region: HTH_Tnp_1; cl17663 406425019039 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425019040 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 406425019041 HTH-like domain; Region: HTH_21; pfam13276 406425019042 Integrase core domain; Region: rve; pfam00665 406425019043 Integrase core domain; Region: rve_3; pfam13683 406425019044 Integrase core domain; Region: rve; pfam00665 406425019045 Bacterial TniB protein; Region: TniB; pfam05621 406425019046 TniQ; Region: TniQ; pfam06527 406425019047 TniQ; Region: TniQ; pfam06527 406425019048 H-NS histone family; Region: Histone_HNS; pfam00816 406425019049 Seripauperin and TIP1 family; Region: SRP1_TIP1; pfam00660 406425019050 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425019051 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 406425019052 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 406425019053 putative transposase OrfB; Reviewed; Region: PHA02517 406425019054 HTH-like domain; Region: HTH_21; pfam13276 406425019055 Integrase core domain; Region: rve; pfam00665 406425019056 Integrase core domain; Region: rve_3; pfam13683 406425019057 Transposase; Region: HTH_Tnp_1; cl17663 406425019058 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 406425019059 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425019060 active site 406425019061 FRG domain; Region: FRG; pfam08867 406425019062 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425019063 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425019064 conserved cys residue [active] 406425019065 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019066 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425019067 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 406425019068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019069 NAD(P) binding site [chemical binding]; other site 406425019070 active site 406425019071 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019072 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425019073 putative substrate translocation pore; other site 406425019074 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425019075 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425019076 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425019077 conserved cys residue [active] 406425019078 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019079 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019080 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 406425019081 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 406425019082 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 406425019083 dimer interface [polypeptide binding]; other site 406425019084 active site 406425019085 heme binding site [chemical binding]; other site 406425019086 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 406425019087 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425019088 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425019089 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425019090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019092 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019093 dimerization interface [polypeptide binding]; other site 406425019094 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425019095 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425019096 ligand binding site [chemical binding]; other site 406425019097 flexible hinge region; other site 406425019098 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 406425019099 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 406425019100 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425019101 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425019102 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425019103 catalytic loop [active] 406425019104 iron binding site [ion binding]; other site 406425019105 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425019106 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425019107 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425019108 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 406425019109 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425019110 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425019111 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425019112 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 406425019113 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425019114 BON domain; Region: BON; pfam04972 406425019115 transcriptional regulator; Provisional; Region: PRK10632 406425019116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019117 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019118 dimerization interface [polypeptide binding]; other site 406425019119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019120 Response regulator receiver domain; Region: Response_reg; pfam00072 406425019121 active site 406425019122 phosphorylation site [posttranslational modification] 406425019123 intermolecular recognition site; other site 406425019124 dimerization interface [polypeptide binding]; other site 406425019125 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425019126 PAS domain; Region: PAS_9; pfam13426 406425019127 putative active site [active] 406425019128 heme pocket [chemical binding]; other site 406425019129 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425019130 PAS fold; Region: PAS_3; pfam08447 406425019131 putative active site [active] 406425019132 heme pocket [chemical binding]; other site 406425019133 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425019134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425019135 dimer interface [polypeptide binding]; other site 406425019136 phosphorylation site [posttranslational modification] 406425019137 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425019138 ATP binding site [chemical binding]; other site 406425019139 Mg2+ binding site [ion binding]; other site 406425019140 G-X-G motif; other site 406425019141 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 406425019142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019143 active site 406425019144 phosphorylation site [posttranslational modification] 406425019145 intermolecular recognition site; other site 406425019146 dimerization interface [polypeptide binding]; other site 406425019147 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425019148 DNA binding residues [nucleotide binding] 406425019149 dimerization interface [polypeptide binding]; other site 406425019150 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425019151 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019152 putative substrate translocation pore; other site 406425019153 mercuric reductase; Validated; Region: PRK06370 406425019154 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425019155 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425019156 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425019157 Family description; Region: UvrD_C_2; pfam13538 406425019158 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 406425019159 HTH-like domain; Region: HTH_21; pfam13276 406425019160 Integrase core domain; Region: rve; pfam00665 406425019161 Integrase core domain; Region: rve_3; pfam13683 406425019162 Transposase; Region: HTH_Tnp_1; cl17663 406425019163 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425019164 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425019165 HEPN domain; Region: HEPN; cl00824 406425019166 Domain of unknown function (DUF955); Region: DUF955; cl01076 406425019167 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425019168 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425019169 non-specific DNA binding site [nucleotide binding]; other site 406425019170 salt bridge; other site 406425019171 sequence-specific DNA binding site [nucleotide binding]; other site 406425019172 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 406425019173 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 406425019174 Predicted flavoprotein [General function prediction only]; Region: COG0431 406425019175 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 406425019176 NIPSNAP; Region: NIPSNAP; pfam07978 406425019177 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425019178 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 406425019179 Coenzyme A binding pocket [chemical binding]; other site 406425019180 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 406425019181 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 406425019182 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 406425019183 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 406425019184 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 406425019185 Walker A/P-loop; other site 406425019186 ATP binding site [chemical binding]; other site 406425019187 Q-loop/lid; other site 406425019188 ABC transporter signature motif; other site 406425019189 Walker B; other site 406425019190 D-loop; other site 406425019191 H-loop/switch region; other site 406425019192 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 406425019193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425019194 dimer interface [polypeptide binding]; other site 406425019195 conserved gate region; other site 406425019196 putative PBP binding loops; other site 406425019197 ABC-ATPase subunit interface; other site 406425019198 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425019199 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425019200 conserved cys residue [active] 406425019201 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 406425019202 metal binding site [ion binding]; metal-binding site 406425019203 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019204 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 406425019205 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 406425019206 Predicted membrane protein [Function unknown]; Region: COG2860 406425019207 UPF0126 domain; Region: UPF0126; pfam03458 406425019208 Predicted membrane protein [Function unknown]; Region: COG4125 406425019209 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425019210 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425019211 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425019212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019213 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019214 dimerization interface [polypeptide binding]; other site 406425019215 Ubiquitin-like proteins; Region: UBQ; cl00155 406425019216 charged pocket; other site 406425019217 hydrophobic patch; other site 406425019218 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 406425019219 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425019220 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425019221 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425019222 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 406425019223 putative NAD(P) binding site [chemical binding]; other site 406425019224 active site 406425019225 putative substrate binding site [chemical binding]; other site 406425019226 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 406425019227 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019228 D-galactonate transporter; Region: 2A0114; TIGR00893 406425019229 putative substrate translocation pore; other site 406425019230 putative aldolase; Validated; Region: PRK08130 406425019231 intersubunit interface [polypeptide binding]; other site 406425019232 active site 406425019233 Zn2+ binding site [ion binding]; other site 406425019234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 406425019235 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 406425019236 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 406425019237 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425019238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425019239 DNA-binding site [nucleotide binding]; DNA binding site 406425019240 FCD domain; Region: FCD; pfam07729 406425019241 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425019242 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425019243 conserved cys residue [active] 406425019244 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019245 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 406425019246 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 406425019247 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 406425019248 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 406425019249 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425019250 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 406425019251 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 406425019252 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 406425019253 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425019254 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 406425019255 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 406425019256 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 406425019257 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 406425019258 active site 406425019259 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425019260 non-specific DNA binding site [nucleotide binding]; other site 406425019261 salt bridge; other site 406425019262 sequence-specific DNA binding site [nucleotide binding]; other site 406425019263 HipA N-terminal domain; Region: Couple_hipA; pfam13657 406425019264 HipA-like N-terminal domain; Region: HipA_N; pfam07805 406425019265 HipA-like C-terminal domain; Region: HipA_C; pfam07804 406425019266 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 406425019267 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425019268 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425019269 catalytic residue [active] 406425019270 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 406425019271 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425019272 ABC-ATPase subunit interface; other site 406425019273 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 406425019274 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 406425019275 Walker A/P-loop; other site 406425019276 ATP binding site [chemical binding]; other site 406425019277 Q-loop/lid; other site 406425019278 ABC transporter signature motif; other site 406425019279 Walker B; other site 406425019280 D-loop; other site 406425019281 H-loop/switch region; other site 406425019282 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 406425019283 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 406425019284 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 406425019285 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 406425019286 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 406425019287 putative ligand binding site [chemical binding]; other site 406425019288 NAD binding site [chemical binding]; other site 406425019289 catalytic site [active] 406425019290 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 406425019291 nudix motif; other site 406425019292 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 406425019293 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425019294 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 406425019295 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 406425019296 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425019297 FtsX-like permease family; Region: FtsX; pfam02687 406425019298 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 406425019299 MG2 domain; Region: A2M_N; pfam01835 406425019300 Alpha-2-macroglobulin family; Region: A2M; pfam00207 406425019301 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 406425019302 surface patch; other site 406425019303 thioester region; other site 406425019304 specificity defining residues; other site 406425019305 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 406425019306 Transglycosylase; Region: Transgly; pfam00912 406425019307 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 406425019308 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 406425019309 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425019310 dimer interface [polypeptide binding]; other site 406425019311 putative CheW interface [polypeptide binding]; other site 406425019312 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425019313 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425019314 trimer interface [polypeptide binding]; other site 406425019315 eyelet of channel; other site 406425019316 acetyl-CoA synthetase; Provisional; Region: PRK00174 406425019317 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 406425019318 active site 406425019319 CoA binding site [chemical binding]; other site 406425019320 acyl-activating enzyme (AAE) consensus motif; other site 406425019321 AMP binding site [chemical binding]; other site 406425019322 acetate binding site [chemical binding]; other site 406425019323 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 406425019324 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 406425019325 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425019326 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425019327 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425019328 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425019329 DNA binding residues [nucleotide binding] 406425019330 High potential iron-sulfur protein; Region: HIPIP; pfam01355 406425019331 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 406425019332 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425019333 membrane-bound complex binding site; other site 406425019334 hinge residues; other site 406425019335 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 406425019336 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 406425019337 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 406425019338 dimer interface [polypeptide binding]; other site 406425019339 Trp docking motif [polypeptide binding]; other site 406425019340 active site 406425019341 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 406425019342 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425019343 N-terminal plug; other site 406425019344 ligand-binding site [chemical binding]; other site 406425019345 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 406425019346 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 406425019347 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425019348 Walker A motif; other site 406425019349 ATP binding site [chemical binding]; other site 406425019350 Walker B motif; other site 406425019351 arginine finger; other site 406425019352 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425019353 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 406425019354 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 406425019355 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 406425019356 coenzyme PQQ biosynthesis protein PqqD; Region: PQQ_PqqD; TIGR03859 406425019357 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 406425019358 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425019359 FeS/SAM binding site; other site 406425019360 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 406425019361 Predicted esterase [General function prediction only]; Region: COG0627 406425019362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 406425019363 Lipase (class 2); Region: Lipase_2; pfam01674 406425019364 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 406425019365 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 406425019366 catalytic site [active] 406425019367 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 406425019368 PAS fold; Region: PAS_4; pfam08448 406425019369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425019370 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425019371 dimer interface [polypeptide binding]; other site 406425019372 phosphorylation site [posttranslational modification] 406425019373 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425019374 ATP binding site [chemical binding]; other site 406425019375 G-X-G motif; other site 406425019376 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 406425019377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019378 active site 406425019379 phosphorylation site [posttranslational modification] 406425019380 intermolecular recognition site; other site 406425019381 dimerization interface [polypeptide binding]; other site 406425019382 benzoate transport; Region: 2A0115; TIGR00895 406425019383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019384 putative substrate translocation pore; other site 406425019385 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019386 ABC-2 type transporter; Region: ABC2_membrane; cl17235 406425019387 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 406425019388 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 406425019389 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 406425019390 Walker A/P-loop; other site 406425019391 ATP binding site [chemical binding]; other site 406425019392 Q-loop/lid; other site 406425019393 ABC transporter signature motif; other site 406425019394 Walker B; other site 406425019395 D-loop; other site 406425019396 H-loop/switch region; other site 406425019397 Cupin domain; Region: Cupin_2; pfam07883 406425019398 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 406425019399 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 406425019400 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 406425019401 choline dehydrogenase; Validated; Region: PRK02106 406425019402 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425019403 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 406425019404 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 406425019405 tetrameric interface [polypeptide binding]; other site 406425019406 NAD binding site [chemical binding]; other site 406425019407 catalytic residues [active] 406425019408 transcriptional regulator BetI; Validated; Region: PRK00767 406425019409 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425019410 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 406425019411 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425019412 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 406425019413 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 406425019414 active site 406425019415 TDP-binding site; other site 406425019416 acceptor substrate-binding pocket; other site 406425019417 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425019418 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019419 putative substrate translocation pore; other site 406425019420 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019421 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 406425019422 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 406425019423 Ligand binding site; other site 406425019424 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425019425 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 406425019426 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425019427 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 406425019428 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 406425019429 NAD binding site [chemical binding]; other site 406425019430 catalytic Zn binding site [ion binding]; other site 406425019431 structural Zn binding site [ion binding]; other site 406425019432 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 406425019433 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425019434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425019435 DNA-binding site [nucleotide binding]; DNA binding site 406425019436 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425019437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425019438 homodimer interface [polypeptide binding]; other site 406425019439 catalytic residue [active] 406425019440 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 406425019441 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 406425019442 sugar binding site [chemical binding]; other site 406425019443 OmpA family; Region: OmpA; pfam00691 406425019444 ligand binding site [chemical binding]; other site 406425019445 PAAR motif; Region: PAAR_motif; pfam05488 406425019446 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425019447 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425019448 conserved cys residue [active] 406425019449 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019450 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 406425019451 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 406425019452 dimer interface [polypeptide binding]; other site 406425019453 active site 406425019454 glycine-pyridoxal phosphate binding site [chemical binding]; other site 406425019455 folate binding site [chemical binding]; other site 406425019456 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 406425019457 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 406425019458 active site 406425019459 dimer interface [polypeptide binding]; other site 406425019460 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 406425019461 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 406425019462 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 406425019463 putative active site [active] 406425019464 putative FMN binding site [chemical binding]; other site 406425019465 putative substrate binding site [chemical binding]; other site 406425019466 putative catalytic residue [active] 406425019467 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425019468 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 406425019469 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 406425019470 4Fe-4S binding domain; Region: Fer4; cl02805 406425019471 Cysteine-rich domain; Region: CCG; pfam02754 406425019472 Cysteine-rich domain; Region: CCG; pfam02754 406425019473 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 406425019474 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 406425019475 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 406425019476 Electron transfer flavoprotein domain; Region: ETF; pfam01012 406425019477 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425019478 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425019479 [2Fe-2S] cluster binding site [ion binding]; other site 406425019480 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 406425019481 putative alpha subunit interface [polypeptide binding]; other site 406425019482 putative active site [active] 406425019483 putative substrate binding site [chemical binding]; other site 406425019484 Fe binding site [ion binding]; other site 406425019485 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 406425019486 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 406425019487 FAD binding pocket [chemical binding]; other site 406425019488 FAD binding motif [chemical binding]; other site 406425019489 phosphate binding motif [ion binding]; other site 406425019490 beta-alpha-beta structure motif; other site 406425019491 NAD binding pocket [chemical binding]; other site 406425019492 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 406425019493 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425019494 catalytic loop [active] 406425019495 iron binding site [ion binding]; other site 406425019496 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 406425019497 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 406425019498 Amino acid permease; Region: AA_permease_2; pfam13520 406425019499 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 406425019500 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 406425019501 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 406425019502 putative active site [active] 406425019503 putative substrate binding site [chemical binding]; other site 406425019504 putative cosubstrate binding site; other site 406425019505 catalytic site [active] 406425019506 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 406425019507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019508 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425019509 dimerization interface [polypeptide binding]; other site 406425019510 substrate binding pocket [chemical binding]; other site 406425019511 choline-sulfatase; Region: chol_sulfatase; TIGR03417 406425019512 Sulfatase; Region: Sulfatase; cl17466 406425019513 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 406425019514 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 406425019515 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 406425019516 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425019517 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425019518 trimer interface [polypeptide binding]; other site 406425019519 eyelet of channel; other site 406425019520 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425019521 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 406425019522 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 406425019523 Peptidase family M28; Region: Peptidase_M28; pfam04389 406425019524 active site 406425019525 metal binding site [ion binding]; metal-binding site 406425019526 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 406425019527 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 406425019528 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 406425019529 Zn binding site [ion binding]; other site 406425019530 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425019531 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425019532 conserved cys residue [active] 406425019533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019534 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425019535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019536 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 406425019537 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 406425019538 Methylamine utilisation protein MauE; Region: MauE; pfam07291 406425019539 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 406425019540 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 406425019541 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 406425019542 Cytochrome c; Region: Cytochrom_C; pfam00034 406425019543 Cytochrome c; Region: Cytochrom_C; pfam00034 406425019544 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425019545 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425019546 NAD(P) binding site [chemical binding]; other site 406425019547 catalytic residues [active] 406425019548 Protein of unknown function, DUF606; Region: DUF606; pfam04657 406425019549 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425019550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019551 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425019552 dimerization interface [polypeptide binding]; other site 406425019553 substrate binding pocket [chemical binding]; other site 406425019554 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 406425019555 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 406425019556 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 406425019557 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 406425019558 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 406425019559 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425019560 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 406425019561 active site 406425019562 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425019563 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 406425019564 Protein of unknown function (DUF971); Region: DUF971; cl01414 406425019565 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 406425019566 substrate binding pocket [chemical binding]; other site 406425019567 active site 406425019568 iron coordination sites [ion binding]; other site 406425019569 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425019570 short chain dehydrogenase; Provisional; Region: PRK06197 406425019571 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 406425019572 putative NAD(P) binding site [chemical binding]; other site 406425019573 active site 406425019574 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 406425019575 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425019576 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 406425019577 NAD binding site [chemical binding]; other site 406425019578 homotetramer interface [polypeptide binding]; other site 406425019579 homodimer interface [polypeptide binding]; other site 406425019580 active site 406425019581 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 406425019582 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425019583 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 406425019584 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425019585 putative active site pocket [active] 406425019586 metal binding site [ion binding]; metal-binding site 406425019587 short chain dehydrogenase; Provisional; Region: PRK08628 406425019588 classical (c) SDRs; Region: SDR_c; cd05233 406425019589 NAD(P) binding site [chemical binding]; other site 406425019590 active site 406425019591 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425019592 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 406425019593 Walker A/P-loop; other site 406425019594 ATP binding site [chemical binding]; other site 406425019595 Q-loop/lid; other site 406425019596 ABC transporter signature motif; other site 406425019597 Walker B; other site 406425019598 D-loop; other site 406425019599 H-loop/switch region; other site 406425019600 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425019601 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425019602 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425019603 TM-ABC transporter signature motif; other site 406425019604 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 406425019605 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425019606 putative ligand binding site [chemical binding]; other site 406425019607 Amidohydrolase; Region: Amidohydro_2; pfam04909 406425019608 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425019609 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425019610 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425019611 DNA-binding site [nucleotide binding]; DNA binding site 406425019612 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 406425019613 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 406425019614 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 406425019615 phosphate binding site [ion binding]; other site 406425019616 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425019617 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 406425019618 hydroxyglutarate oxidase; Provisional; Region: PRK11728 406425019619 amidase; Provisional; Region: PRK09201 406425019620 Amidase; Region: Amidase; cl11426 406425019621 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019622 D-galactonate transporter; Region: 2A0114; TIGR00893 406425019623 putative substrate translocation pore; other site 406425019624 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 406425019625 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425019626 active site 406425019627 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425019628 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019629 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019630 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425019631 putative dimerization interface [polypeptide binding]; other site 406425019632 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 406425019633 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 406425019634 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425019635 metal binding site [ion binding]; metal-binding site 406425019636 active site 406425019637 I-site; other site 406425019638 putative outer membrane lipoprotein; Provisional; Region: PRK09967 406425019639 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425019640 ligand binding site [chemical binding]; other site 406425019641 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 406425019642 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 406425019643 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425019644 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 406425019645 PAAR motif; Region: PAAR_motif; pfam05488 406425019646 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 406425019647 RHS Repeat; Region: RHS_repeat; pfam05593 406425019648 RHS Repeat; Region: RHS_repeat; pfam05593 406425019649 RHS Repeat; Region: RHS_repeat; pfam05593 406425019650 RHS Repeat; Region: RHS_repeat; pfam05593 406425019651 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 406425019652 RHS protein; Region: RHS; pfam03527 406425019653 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 406425019654 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 406425019655 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 406425019656 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 406425019657 hypothetical protein; Provisional; Region: PRK04262 406425019658 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425019659 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425019660 dimerization interface [polypeptide binding]; other site 406425019661 ligand binding site [chemical binding]; other site 406425019662 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425019663 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425019664 TM-ABC transporter signature motif; other site 406425019665 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 406425019666 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 406425019667 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425019668 TM-ABC transporter signature motif; other site 406425019669 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 406425019670 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425019671 Walker A/P-loop; other site 406425019672 ATP binding site [chemical binding]; other site 406425019673 Q-loop/lid; other site 406425019674 ABC transporter signature motif; other site 406425019675 Walker B; other site 406425019676 D-loop; other site 406425019677 H-loop/switch region; other site 406425019678 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425019679 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425019680 Walker A/P-loop; other site 406425019681 ATP binding site [chemical binding]; other site 406425019682 Q-loop/lid; other site 406425019683 ABC transporter signature motif; other site 406425019684 Walker B; other site 406425019685 D-loop; other site 406425019686 H-loop/switch region; other site 406425019687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019689 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019690 dimerization interface [polypeptide binding]; other site 406425019691 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 406425019692 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 406425019693 EamA-like transporter family; Region: EamA; pfam00892 406425019694 EamA-like transporter family; Region: EamA; pfam00892 406425019695 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425019696 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 406425019697 dimer interface [polypeptide binding]; other site 406425019698 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 406425019699 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425019700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019701 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425019702 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019703 Cupin; Region: Cupin_6; pfam12852 406425019704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019705 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425019706 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019707 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425019708 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 406425019709 NADP binding site [chemical binding]; other site 406425019710 active site 406425019711 steroid binding site; other site 406425019712 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425019713 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 406425019714 inhibitor-cofactor binding pocket; inhibition site 406425019715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425019716 catalytic residue [active] 406425019717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019719 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 406425019720 putative dimerization interface [polypeptide binding]; other site 406425019721 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 406425019722 chorismate binding enzyme; Region: Chorismate_bind; cl10555 406425019723 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 406425019724 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 406425019725 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 406425019726 nucleophilic elbow; other site 406425019727 catalytic triad; other site 406425019728 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 406425019729 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 406425019730 acyl-activating enzyme (AAE) consensus motif; other site 406425019731 active site 406425019732 AMP binding site [chemical binding]; other site 406425019733 substrate binding site [chemical binding]; other site 406425019734 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425019735 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019736 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 406425019737 Condensation domain; Region: Condensation; pfam00668 406425019738 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 406425019739 Nonribosomal peptide synthase; Region: NRPS; pfam08415 406425019740 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 406425019741 acyl-activating enzyme (AAE) consensus motif; other site 406425019742 AMP binding site [chemical binding]; other site 406425019743 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425019744 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425019745 Condensation domain; Region: Condensation; pfam00668 406425019746 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 406425019747 Nonribosomal peptide synthase; Region: NRPS; pfam08415 406425019748 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 406425019749 acyl-activating enzyme (AAE) consensus motif; other site 406425019750 AMP binding site [chemical binding]; other site 406425019751 Methyltransferase domain; Region: Methyltransf_12; pfam08242 406425019752 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 406425019753 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 406425019754 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 406425019755 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 406425019756 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 406425019757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425019758 Walker A/P-loop; other site 406425019759 ATP binding site [chemical binding]; other site 406425019760 Q-loop/lid; other site 406425019761 ABC transporter signature motif; other site 406425019762 Walker B; other site 406425019763 D-loop; other site 406425019764 H-loop/switch region; other site 406425019765 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425019766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425019767 Walker A/P-loop; other site 406425019768 ATP binding site [chemical binding]; other site 406425019769 Q-loop/lid; other site 406425019770 ABC transporter signature motif; other site 406425019771 Walker B; other site 406425019772 D-loop; other site 406425019773 H-loop/switch region; other site 406425019774 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 406425019775 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425019776 N-terminal plug; other site 406425019777 ligand-binding site [chemical binding]; other site 406425019778 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 406425019779 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 406425019780 muropeptide transporter; Validated; Region: ampG; cl17669 406425019781 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019782 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425019783 putative substrate translocation pore; other site 406425019784 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425019785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019786 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 406425019787 putative dimerization interface [polypeptide binding]; other site 406425019788 putative substrate binding pocket [chemical binding]; other site 406425019789 Leucine rich repeat; Region: LRR_8; pfam13855 406425019790 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425019791 active site 406425019792 ATP binding site [chemical binding]; other site 406425019793 substrate binding site [chemical binding]; other site 406425019794 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425019795 Protein of unknown function (DUF461); Region: DUF461; pfam04314 406425019796 CopC domain; Region: CopC; pfam04234 406425019797 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 406425019798 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 406425019799 putative hydrophobic ligand binding site [chemical binding]; other site 406425019800 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425019801 catalytic loop [active] 406425019802 iron binding site [ion binding]; other site 406425019803 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 406425019804 GAF domain; Region: GAF; pfam01590 406425019805 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425019806 Walker A motif; other site 406425019807 ATP binding site [chemical binding]; other site 406425019808 Walker B motif; other site 406425019809 arginine finger; other site 406425019810 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425019811 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 406425019812 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 406425019813 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 406425019814 TPR repeat; Region: TPR_11; pfam13414 406425019815 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425019816 binding surface 406425019817 TPR motif; other site 406425019818 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 406425019819 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425019820 binding surface 406425019821 TPR motif; other site 406425019822 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425019823 TPR motif; other site 406425019824 binding surface 406425019825 TPR repeat; Region: TPR_11; pfam13414 406425019826 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 406425019827 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 406425019828 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 406425019829 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 406425019830 short chain dehydrogenase; Validated; Region: PRK05855 406425019831 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425019832 classical (c) SDRs; Region: SDR_c; cd05233 406425019833 NAD(P) binding site [chemical binding]; other site 406425019834 active site 406425019835 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 406425019836 active site 406425019837 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 406425019838 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 406425019839 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 406425019840 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 406425019841 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 406425019842 active site residues [active] 406425019843 dimer interface [polypeptide binding]; other site 406425019844 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 406425019845 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425019846 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425019847 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019848 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425019849 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425019850 active site 406425019851 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 406425019852 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 406425019853 active site 406425019854 acyl-activating enzyme (AAE) consensus motif; other site 406425019855 putative CoA binding site [chemical binding]; other site 406425019856 AMP binding site [chemical binding]; other site 406425019857 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 406425019858 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 406425019859 tetrameric interface [polypeptide binding]; other site 406425019860 NAD binding site [chemical binding]; other site 406425019861 catalytic residues [active] 406425019862 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 406425019863 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 406425019864 enoyl-CoA hydratase; Provisional; Region: PRK09076 406425019865 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425019866 substrate binding site [chemical binding]; other site 406425019867 oxyanion hole (OAH) forming residues; other site 406425019868 trimer interface [polypeptide binding]; other site 406425019869 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 406425019870 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425019871 substrate binding site [chemical binding]; other site 406425019872 oxyanion hole (OAH) forming residues; other site 406425019873 trimer interface [polypeptide binding]; other site 406425019874 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 406425019875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019877 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 406425019878 putative effector binding pocket; other site 406425019879 putative dimerization interface [polypeptide binding]; other site 406425019880 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425019881 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019882 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425019883 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 406425019884 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 406425019885 Walker A/P-loop; other site 406425019886 ATP binding site [chemical binding]; other site 406425019887 Q-loop/lid; other site 406425019888 ABC transporter signature motif; other site 406425019889 Walker B; other site 406425019890 D-loop; other site 406425019891 H-loop/switch region; other site 406425019892 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 406425019893 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425019894 FtsX-like permease family; Region: FtsX; pfam02687 406425019895 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425019896 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425019897 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425019898 HD domain; Region: HD_3; pfam13023 406425019899 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425019900 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425019901 non-specific DNA binding site [nucleotide binding]; other site 406425019902 salt bridge; other site 406425019903 sequence-specific DNA binding site [nucleotide binding]; other site 406425019904 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 406425019905 B1 nucleotide binding pocket [chemical binding]; other site 406425019906 B2 nucleotide binding pocket [chemical binding]; other site 406425019907 CAS motifs; other site 406425019908 active site 406425019909 Isochorismatase family; Region: Isochorismatase; pfam00857 406425019910 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 406425019911 catalytic triad [active] 406425019912 conserved cis-peptide bond; other site 406425019913 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425019914 Cupin domain; Region: Cupin_2; cl17218 406425019915 putative transposase OrfB; Reviewed; Region: PHA02517 406425019916 HTH-like domain; Region: HTH_21; pfam13276 406425019917 Integrase core domain; Region: rve; pfam00665 406425019918 Integrase core domain; Region: rve_3; pfam13683 406425019919 Transposase; Region: HTH_Tnp_1; cl17663 406425019920 Cytochrome c; Region: Cytochrom_C; pfam00034 406425019921 short chain dehydrogenase; Provisional; Region: PRK05854 406425019922 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 406425019923 putative NAD(P) binding site [chemical binding]; other site 406425019924 active site 406425019925 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 406425019926 glutaminase; Provisional; Region: PRK00971 406425019927 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 406425019928 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019929 active site 406425019930 phosphorylation site [posttranslational modification] 406425019931 intermolecular recognition site; other site 406425019932 dimerization interface [polypeptide binding]; other site 406425019933 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425019934 DNA binding site [nucleotide binding] 406425019935 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425019936 dimer interface [polypeptide binding]; other site 406425019937 phosphorylation site [posttranslational modification] 406425019938 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425019939 ATP binding site [chemical binding]; other site 406425019940 Mg2+ binding site [ion binding]; other site 406425019941 G-X-G motif; other site 406425019942 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 406425019943 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 406425019944 active site 406425019945 nucleophile elbow; other site 406425019946 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 406425019947 Surface antigen; Region: Bac_surface_Ag; pfam01103 406425019948 rod shape-determining protein MreB; Provisional; Region: PRK13930 406425019949 MreB and similar proteins; Region: MreB_like; cd10225 406425019950 nucleotide binding site [chemical binding]; other site 406425019951 Mg binding site [ion binding]; other site 406425019952 putative protofilament interaction site [polypeptide binding]; other site 406425019953 RodZ interaction site [polypeptide binding]; other site 406425019954 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 406425019955 putative active site [active] 406425019956 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 406425019957 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 406425019958 Autotransporter beta-domain; Region: Autotransporter; pfam03797 406425019959 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 406425019960 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 406425019961 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425019962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425019963 The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold; Region: PBP2_BlaA; cd08487 406425019964 putative dimerization interface [polypeptide binding]; other site 406425019965 putative substrate binding pocket [chemical binding]; other site 406425019966 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 406425019967 Protein of unknown function (DUF805); Region: DUF805; cl01224 406425019968 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 406425019969 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425019970 MarR family; Region: MarR_2; pfam12802 406425019971 sensor protein QseC; Provisional; Region: PRK10337 406425019972 HAMP domain; Region: HAMP; pfam00672 406425019973 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425019974 dimer interface [polypeptide binding]; other site 406425019975 phosphorylation site [posttranslational modification] 406425019976 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425019977 ATP binding site [chemical binding]; other site 406425019978 Mg2+ binding site [ion binding]; other site 406425019979 G-X-G motif; other site 406425019980 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 406425019981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019982 active site 406425019983 phosphorylation site [posttranslational modification] 406425019984 intermolecular recognition site; other site 406425019985 dimerization interface [polypeptide binding]; other site 406425019986 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425019987 DNA binding site [nucleotide binding] 406425019988 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 406425019989 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425019990 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425019991 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425019992 putative active site [active] 406425019993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425019994 Coenzyme A binding pocket [chemical binding]; other site 406425019995 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 406425019996 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425019997 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 406425019998 tetramer interface [polypeptide binding]; other site 406425019999 active site 406425020000 Mg2+/Mn2+ binding site [ion binding]; other site 406425020001 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 406425020002 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 406425020003 Cytochrome P450; Region: p450; cl12078 406425020004 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 406425020005 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 406425020006 active site residue [active] 406425020007 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 406425020008 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425020009 conserved cys residue [active] 406425020010 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425020011 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 406425020012 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425020013 FMN binding site [chemical binding]; other site 406425020014 substrate binding site [chemical binding]; other site 406425020015 putative catalytic residue [active] 406425020016 hypothetical protein; Provisional; Region: PRK07907 406425020017 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 406425020018 metal binding site [ion binding]; metal-binding site 406425020019 putative dimer interface [polypeptide binding]; other site 406425020020 putative dehydrogenase; Provisional; Region: PRK10098 406425020021 TfoX N-terminal domain; Region: TfoX_N; pfam04993 406425020022 NnrU protein; Region: NnrU; pfam07298 406425020023 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 406425020024 Spore germination protein; Region: Spore_permease; cl17796 406425020025 hypothetical protein; Provisional; Region: PRK10621 406425020026 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 406425020027 Protein of unknown function, DUF488; Region: DUF488; pfam04343 406425020028 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 406425020029 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425020030 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425020031 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425020032 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425020033 non-specific DNA binding site [nucleotide binding]; other site 406425020034 salt bridge; other site 406425020035 sequence-specific DNA binding site [nucleotide binding]; other site 406425020036 Cupin domain; Region: Cupin_2; pfam07883 406425020037 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 406425020038 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425020039 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 406425020040 hypothetical protein; Provisional; Region: PRK07236 406425020041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020043 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425020044 dimerization interface [polypeptide binding]; other site 406425020045 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425020046 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425020047 Coenzyme A binding pocket [chemical binding]; other site 406425020048 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 406425020049 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 406425020050 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 406425020051 active site 406425020052 metal binding site [ion binding]; metal-binding site 406425020053 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425020054 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 406425020055 spermidine synthase; Provisional; Region: PRK03612 406425020056 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425020057 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 406425020058 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 406425020059 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 406425020060 Short C-terminal domain; Region: SHOCT; pfam09851 406425020061 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 406425020062 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 406425020063 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 406425020064 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425020065 hydrophobic ligand binding site; other site 406425020066 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 406425020067 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425020068 active site 406425020069 nucleotide binding site [chemical binding]; other site 406425020070 HIGH motif; other site 406425020071 KMSKS motif; other site 406425020072 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 406425020073 nudix motif; other site 406425020074 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 406425020075 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 406425020076 active site 406425020077 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425020078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425020079 DNA-binding site [nucleotide binding]; DNA binding site 406425020080 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425020081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425020082 homodimer interface [polypeptide binding]; other site 406425020083 catalytic residue [active] 406425020084 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 406425020085 EamA-like transporter family; Region: EamA; pfam00892 406425020086 diaminopimelate decarboxylase; Provisional; Region: PRK11165 406425020087 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 406425020088 active site 406425020089 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425020090 substrate binding site [chemical binding]; other site 406425020091 catalytic residues [active] 406425020092 dimer interface [polypeptide binding]; other site 406425020093 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 406425020094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020095 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425020096 dimerization interface [polypeptide binding]; other site 406425020097 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 406425020098 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425020099 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 406425020100 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 406425020101 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 406425020102 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425020103 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425020104 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425020105 Coenzyme A binding pocket [chemical binding]; other site 406425020106 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 406425020107 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 406425020108 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 406425020109 gamma subunit interface [polypeptide binding]; other site 406425020110 epsilon subunit interface [polypeptide binding]; other site 406425020111 LBP interface [polypeptide binding]; other site 406425020112 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 406425020113 core domain interface [polypeptide binding]; other site 406425020114 delta subunit interface [polypeptide binding]; other site 406425020115 epsilon subunit interface [polypeptide binding]; other site 406425020116 phosphate acetyltransferase; Provisional; Region: PRK11890 406425020117 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 406425020118 Acetokinase family; Region: Acetate_kinase; cl17229 406425020119 propionate/acetate kinase; Provisional; Region: PRK12379 406425020120 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 406425020121 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 406425020122 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 406425020123 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 406425020124 NAD binding site [chemical binding]; other site 406425020125 homotetramer interface [polypeptide binding]; other site 406425020126 homodimer interface [polypeptide binding]; other site 406425020127 substrate binding site [chemical binding]; other site 406425020128 active site 406425020129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 406425020130 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 406425020131 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020132 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425020133 putative substrate translocation pore; other site 406425020134 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425020135 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425020136 Trehalase; Region: Trehalase; cl17346 406425020137 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 406425020138 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 406425020139 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 406425020140 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425020141 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425020142 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425020143 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425020144 DNA binding residues [nucleotide binding] 406425020145 dimerization interface [polypeptide binding]; other site 406425020146 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425020147 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 406425020148 DNA binding residues [nucleotide binding] 406425020149 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 406425020150 FHIPEP family; Region: FHIPEP; pfam00771 406425020151 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 406425020152 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 406425020153 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425020154 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425020155 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425020156 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 406425020157 FHA domain; Region: FHA; pfam00498 406425020158 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 406425020159 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 406425020160 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 406425020161 type III secretion system protein; Reviewed; Region: PRK06937 406425020162 Flagellar assembly protein FliH; Region: FliH; pfam02108 406425020163 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 406425020164 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 406425020165 Walker A motif/ATP binding site; other site 406425020166 Walker B motif; other site 406425020167 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 406425020168 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 406425020169 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 406425020170 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 406425020171 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 406425020172 active site 406425020173 dimer interface [polypeptide binding]; other site 406425020174 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 406425020175 Ligand Binding Site [chemical binding]; other site 406425020176 Molecular Tunnel; other site 406425020177 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 406425020178 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 406425020179 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 406425020180 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 406425020181 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425020182 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425020183 catalytic residue [active] 406425020184 type III secretion system protein YscR; Provisional; Region: PRK12797 406425020185 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 406425020186 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 406425020187 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425020188 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425020189 DNA binding site [nucleotide binding] 406425020190 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425020191 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425020192 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 406425020193 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425020194 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425020195 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425020196 catalytic loop [active] 406425020197 iron binding site [ion binding]; other site 406425020198 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425020199 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425020200 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425020201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425020202 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 406425020203 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425020204 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425020205 Walker A motif; other site 406425020206 ATP binding site [chemical binding]; other site 406425020207 Walker B motif; other site 406425020208 arginine finger; other site 406425020209 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 406425020210 DNA-binding interface [nucleotide binding]; DNA binding site 406425020211 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425020212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 406425020213 active site 406425020214 phosphorylation site [posttranslational modification] 406425020215 intermolecular recognition site; other site 406425020216 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425020217 DNA binding residues [nucleotide binding] 406425020218 dimerization interface [polypeptide binding]; other site 406425020219 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 406425020220 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 406425020221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425020222 dimer interface [polypeptide binding]; other site 406425020223 putative CheW interface [polypeptide binding]; other site 406425020224 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 406425020225 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 406425020226 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425020227 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425020228 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425020229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425020230 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 406425020231 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425020232 putative ligand binding site [chemical binding]; other site 406425020233 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425020234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 406425020235 Walker A/P-loop; other site 406425020236 ATP binding site [chemical binding]; other site 406425020237 Q-loop/lid; other site 406425020238 ABC transporter signature motif; other site 406425020239 Walker B; other site 406425020240 D-loop; other site 406425020241 H-loop/switch region; other site 406425020242 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 406425020243 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425020244 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425020245 TM-ABC transporter signature motif; other site 406425020246 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425020247 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 406425020248 putative NAD(P) binding site [chemical binding]; other site 406425020249 catalytic Zn binding site [ion binding]; other site 406425020250 structural Zn binding site [ion binding]; other site 406425020251 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 406425020252 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 406425020253 N- and C-terminal domain interface [polypeptide binding]; other site 406425020254 putative active site [active] 406425020255 MgATP binding site [chemical binding]; other site 406425020256 catalytic site [active] 406425020257 metal binding site [ion binding]; metal-binding site 406425020258 putative xylulose binding site [chemical binding]; other site 406425020259 putative homodimer interface [polypeptide binding]; other site 406425020260 short chain dehydrogenase; Provisional; Region: PRK07060 406425020261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020262 NAD(P) binding site [chemical binding]; other site 406425020263 active site 406425020264 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 406425020265 metal-binding site 406425020266 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 406425020267 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 406425020268 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 406425020269 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425020270 Sel1-like repeats; Region: SEL1; smart00671 406425020271 Sel1-like repeats; Region: SEL1; smart00671 406425020272 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 406425020273 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425020274 N-terminal plug; other site 406425020275 ligand-binding site [chemical binding]; other site 406425020276 aspartate carbamoyltransferase; Provisional; Region: PRK11891 406425020277 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 406425020278 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 406425020279 Predicted small secreted protein [Function unknown]; Region: COG5510 406425020280 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 406425020281 EamA-like transporter family; Region: EamA; pfam00892 406425020282 EamA-like transporter family; Region: EamA; pfam00892 406425020283 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 406425020284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425020285 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425020286 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 406425020287 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 406425020288 classical (c) SDRs; Region: SDR_c; cd05233 406425020289 NAD(P) binding site [chemical binding]; other site 406425020290 active site 406425020291 Probable dihydrodipicolinate reductase; Region: PLN02775 406425020292 short chain dehydrogenase; Provisional; Region: PRK12828 406425020293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020294 NAD(P) binding site [chemical binding]; other site 406425020295 active site 406425020296 DNA-binding response regulator CreB; Provisional; Region: PRK11083 406425020297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020298 active site 406425020299 phosphorylation site [posttranslational modification] 406425020300 intermolecular recognition site; other site 406425020301 dimerization interface [polypeptide binding]; other site 406425020302 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425020303 DNA binding site [nucleotide binding] 406425020304 sensory histidine kinase CreC; Provisional; Region: PRK11100 406425020305 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425020306 dimerization interface [polypeptide binding]; other site 406425020307 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425020308 dimer interface [polypeptide binding]; other site 406425020309 phosphorylation site [posttranslational modification] 406425020310 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425020311 ATP binding site [chemical binding]; other site 406425020312 Mg2+ binding site [ion binding]; other site 406425020313 G-X-G motif; other site 406425020314 inner membrane protein; Provisional; Region: PRK11715 406425020315 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 406425020316 homotrimer interaction site [polypeptide binding]; other site 406425020317 putative active site [active] 406425020318 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020319 putative substrate translocation pore; other site 406425020320 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020321 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020322 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425020323 dimerization interface [polypeptide binding]; other site 406425020324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020326 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425020327 putative effector binding pocket; other site 406425020328 dimerization interface [polypeptide binding]; other site 406425020329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020330 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425020331 NAD(P) binding site [chemical binding]; other site 406425020332 active site 406425020333 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 406425020334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020335 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425020336 putative substrate translocation pore; other site 406425020337 carbamoyl-phosphate synthase; Region: PLN02735 406425020338 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020339 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020340 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425020341 dimerization interface [polypeptide binding]; other site 406425020342 classical (c) SDRs; Region: SDR_c; cd05233 406425020343 NAD(P) binding site [chemical binding]; other site 406425020344 active site 406425020345 Predicted metalloprotease [General function prediction only]; Region: COG2321 406425020346 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 406425020347 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425020348 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425020349 DNA binding residues [nucleotide binding] 406425020350 dimerization interface [polypeptide binding]; other site 406425020351 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425020352 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425020353 NAD(P) binding site [chemical binding]; other site 406425020354 catalytic residues [active] 406425020355 hypothetical protein; Provisional; Region: PRK07481 406425020356 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425020357 inhibitor-cofactor binding pocket; inhibition site 406425020358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425020359 catalytic residue [active] 406425020360 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 406425020361 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 406425020362 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425020363 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425020364 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425020365 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425020366 trimer interface [polypeptide binding]; other site 406425020367 eyelet of channel; other site 406425020368 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 406425020369 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425020370 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 406425020371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425020372 dimer interface [polypeptide binding]; other site 406425020373 conserved gate region; other site 406425020374 putative PBP binding loops; other site 406425020375 ABC-ATPase subunit interface; other site 406425020376 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425020377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425020378 dimer interface [polypeptide binding]; other site 406425020379 conserved gate region; other site 406425020380 putative PBP binding loops; other site 406425020381 ABC-ATPase subunit interface; other site 406425020382 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425020383 DNA binding site [nucleotide binding] 406425020384 domain linker motif; other site 406425020385 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 406425020386 putative dimerization interface [polypeptide binding]; other site 406425020387 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425020388 putative ligand binding site [chemical binding]; other site 406425020389 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 406425020390 active site 406425020391 catalytic site [active] 406425020392 putative metal binding site [ion binding]; other site 406425020393 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 406425020394 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425020395 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425020396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425020397 Coenzyme A binding pocket [chemical binding]; other site 406425020398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020400 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425020401 dimerization interface [polypeptide binding]; other site 406425020402 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425020403 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425020404 metal binding site [ion binding]; metal-binding site 406425020405 putative dimer interface [polypeptide binding]; other site 406425020406 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425020407 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425020408 trimer interface [polypeptide binding]; other site 406425020409 eyelet of channel; other site 406425020410 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020411 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425020412 putative substrate translocation pore; other site 406425020413 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 406425020414 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425020415 FMN binding site [chemical binding]; other site 406425020416 active site 406425020417 substrate binding site [chemical binding]; other site 406425020418 catalytic residue [active] 406425020419 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425020420 dimerization interface [polypeptide binding]; other site 406425020421 putative DNA binding site [nucleotide binding]; other site 406425020422 putative Zn2+ binding site [ion binding]; other site 406425020423 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 406425020424 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425020425 motif II; other site 406425020426 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 406425020427 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 406425020428 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 406425020429 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425020430 active site 406425020431 metal binding site [ion binding]; metal-binding site 406425020432 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 406425020433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425020434 dimer interface [polypeptide binding]; other site 406425020435 conserved gate region; other site 406425020436 putative PBP binding loops; other site 406425020437 ABC-ATPase subunit interface; other site 406425020438 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425020439 putative PBP binding loops; other site 406425020440 dimer interface [polypeptide binding]; other site 406425020441 ABC-ATPase subunit interface; other site 406425020442 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425020443 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 406425020444 Walker A/P-loop; other site 406425020445 ATP binding site [chemical binding]; other site 406425020446 Q-loop/lid; other site 406425020447 ABC transporter signature motif; other site 406425020448 Walker B; other site 406425020449 D-loop; other site 406425020450 H-loop/switch region; other site 406425020451 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 406425020452 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425020453 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425020454 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425020455 putative active site [active] 406425020456 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 406425020457 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425020458 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425020459 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425020460 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 406425020461 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 406425020462 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425020463 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425020464 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 406425020465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425020466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020468 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425020469 dimerization interface [polypeptide binding]; other site 406425020470 substrate binding pocket [chemical binding]; other site 406425020471 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425020472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020473 NAD(P) binding site [chemical binding]; other site 406425020474 active site 406425020475 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 406425020476 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 406425020477 DNA binding residues [nucleotide binding] 406425020478 dimer interface [polypeptide binding]; other site 406425020479 [2Fe-2S] cluster binding site [ion binding]; other site 406425020480 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425020481 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425020482 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425020483 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425020484 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425020485 MarR family; Region: MarR_2; cl17246 406425020486 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 406425020487 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 406425020488 C-terminal domain interface [polypeptide binding]; other site 406425020489 GSH binding site (G-site) [chemical binding]; other site 406425020490 dimer interface [polypeptide binding]; other site 406425020491 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 406425020492 N-terminal domain interface [polypeptide binding]; other site 406425020493 dimer interface [polypeptide binding]; other site 406425020494 substrate binding pocket (H-site) [chemical binding]; other site 406425020495 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020496 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425020497 putative substrate translocation pore; other site 406425020498 Isochorismatase family; Region: Isochorismatase; pfam00857 406425020499 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 406425020500 catalytic triad [active] 406425020501 conserved cis-peptide bond; other site 406425020502 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425020503 Predicted transcriptional regulators [Transcription]; Region: COG1733 406425020504 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425020505 dimerization interface [polypeptide binding]; other site 406425020506 putative DNA binding site [nucleotide binding]; other site 406425020507 putative Zn2+ binding site [ion binding]; other site 406425020508 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425020509 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425020510 trimer interface [polypeptide binding]; other site 406425020511 eyelet of channel; other site 406425020512 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 406425020513 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 406425020514 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425020515 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 406425020516 FOG: CBS domain [General function prediction only]; Region: COG0517 406425020517 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 406425020518 dimerization interface [polypeptide binding]; other site 406425020519 active site 406425020520 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425020521 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 406425020522 active site 406425020523 DNA binding site [nucleotide binding] 406425020524 Int/Topo IB signature motif; other site 406425020525 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 406425020526 putative transposase OrfB; Reviewed; Region: PHA02517 406425020527 HTH-like domain; Region: HTH_21; pfam13276 406425020528 Integrase core domain; Region: rve; pfam00665 406425020529 Integrase core domain; Region: rve_3; pfam13683 406425020530 Transposase; Region: HTH_Tnp_1; cl17663 406425020531 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 406425020532 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 406425020533 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 406425020534 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 406425020535 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 406425020536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 406425020537 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 406425020538 Transposase; Region: HTH_Tnp_1; pfam01527 406425020539 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425020540 Transposase; Region: HTH_Tnp_1; cl17663 406425020541 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425020542 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 406425020543 HTH-like domain; Region: HTH_21; pfam13276 406425020544 Integrase core domain; Region: rve; pfam00665 406425020545 Integrase core domain; Region: rve_3; pfam13683 406425020546 Homeodomain-like domain; Region: HTH_23; cl17451 406425020547 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425020548 Integrase core domain; Region: rve; pfam00665 406425020549 Integrase core domain; Region: rve_3; pfam13683 406425020550 H-NS histone family; Region: Histone_HNS; pfam00816 406425020551 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 406425020552 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425020553 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 406425020554 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 406425020555 active site 406425020556 metal binding site [ion binding]; metal-binding site 406425020557 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425020558 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 406425020559 Autoinducer synthetase; Region: Autoind_synth; cl17404 406425020560 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 406425020561 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425020562 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425020563 DNA binding residues [nucleotide binding] 406425020564 dimerization interface [polypeptide binding]; other site 406425020565 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 406425020566 MgtC family; Region: MgtC; pfam02308 406425020567 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 406425020568 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425020569 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 406425020570 multidrug resistance protein MdtN; Provisional; Region: PRK10476 406425020571 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 406425020572 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425020573 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020574 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020575 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 406425020576 putative dimerization interface [polypeptide binding]; other site 406425020577 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 406425020578 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425020579 putative active site [active] 406425020580 putative metal binding site [ion binding]; other site 406425020581 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 406425020582 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425020583 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425020584 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425020585 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425020586 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425020587 trimer interface [polypeptide binding]; other site 406425020588 eyelet of channel; other site 406425020589 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 406425020590 [2Fe-2S] cluster binding site [ion binding]; other site 406425020591 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425020592 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425020593 [2Fe-2S] cluster binding site [ion binding]; other site 406425020594 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425020595 hydrophobic ligand binding site; other site 406425020596 short chain dehydrogenase; Provisional; Region: PRK12939 406425020597 classical (c) SDRs; Region: SDR_c; cd05233 406425020598 NAD(P) binding site [chemical binding]; other site 406425020599 active site 406425020600 Cupin domain; Region: Cupin_2; pfam07883 406425020601 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425020602 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425020603 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425020604 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425020605 short chain dehydrogenase; Provisional; Region: PRK07062 406425020606 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 406425020607 putative NAD(P) binding site [chemical binding]; other site 406425020608 putative active site [active] 406425020609 hypothetical protein; Provisional; Region: PRK07064 406425020610 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425020611 PYR/PP interface [polypeptide binding]; other site 406425020612 dimer interface [polypeptide binding]; other site 406425020613 TPP binding site [chemical binding]; other site 406425020614 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 406425020615 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 406425020616 TPP-binding site [chemical binding]; other site 406425020617 L-aspartate dehydrogenase; Provisional; Region: PRK13303 406425020618 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 406425020619 Domain of unknown function DUF108; Region: DUF108; pfam01958 406425020620 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425020621 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 406425020622 NAD(P) binding site [chemical binding]; other site 406425020623 catalytic residues [active] 406425020624 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425020625 active site 406425020626 metal binding site [ion binding]; metal-binding site 406425020627 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 406425020628 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425020629 putative active site [active] 406425020630 putative metal binding site [ion binding]; other site 406425020631 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 406425020632 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425020633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425020634 benzoate transport; Region: 2A0115; TIGR00895 406425020635 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020636 putative substrate translocation pore; other site 406425020637 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020638 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425020639 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425020640 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 406425020641 trimer interface [polypeptide binding]; other site 406425020642 putative Zn binding site [ion binding]; other site 406425020643 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 406425020644 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 406425020645 substrate binding site [chemical binding]; other site 406425020646 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 406425020647 substrate binding site [chemical binding]; other site 406425020648 ligand binding site [chemical binding]; other site 406425020649 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 406425020650 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 406425020651 conserved cys residue [active] 406425020652 SnoaL-like domain; Region: SnoaL_2; pfam12680 406425020653 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425020654 Ligand Binding Site [chemical binding]; other site 406425020655 amidase; Provisional; Region: PRK07486 406425020656 Amidase; Region: Amidase; pfam01425 406425020657 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 406425020658 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 406425020659 active site 406425020660 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 406425020661 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 406425020662 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 406425020663 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 406425020664 active site 1 [active] 406425020665 dimer interface [polypeptide binding]; other site 406425020666 hexamer interface [polypeptide binding]; other site 406425020667 active site 2 [active] 406425020668 aldolase II superfamily protein; Provisional; Region: PRK07044 406425020669 intersubunit interface [polypeptide binding]; other site 406425020670 active site 406425020671 Zn2+ binding site [ion binding]; other site 406425020672 Urea transporter; Region: UT; cl01829 406425020673 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 406425020674 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425020675 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 406425020676 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 406425020677 short chain dehydrogenase; Provisional; Region: PRK07832 406425020678 classical (c) SDRs; Region: SDR_c; cd05233 406425020679 NAD(P) binding site [chemical binding]; other site 406425020680 active site 406425020681 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 406425020682 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 406425020683 YhhN-like protein; Region: YhhN; pfam07947 406425020684 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 406425020685 oligomer interface [polypeptide binding]; other site 406425020686 putative active site [active] 406425020687 Mn binding site [ion binding]; other site 406425020688 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425020689 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425020690 substrate binding pocket [chemical binding]; other site 406425020691 membrane-bound complex binding site; other site 406425020692 hinge residues; other site 406425020693 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 406425020694 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 406425020695 DNA binding residues [nucleotide binding] 406425020696 putative dimer interface [polypeptide binding]; other site 406425020697 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 406425020698 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425020699 Coenzyme A binding pocket [chemical binding]; other site 406425020700 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020701 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020702 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425020703 dimerization interface [polypeptide binding]; other site 406425020704 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 406425020705 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 406425020706 NADP binding site [chemical binding]; other site 406425020707 dimer interface [polypeptide binding]; other site 406425020708 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 406425020709 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020710 putative substrate translocation pore; other site 406425020711 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020712 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425020713 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 406425020714 dimer interface [polypeptide binding]; other site 406425020715 ligand binding site [chemical binding]; other site 406425020716 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425020717 dimerization interface [polypeptide binding]; other site 406425020718 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425020719 dimer interface [polypeptide binding]; other site 406425020720 putative CheW interface [polypeptide binding]; other site 406425020721 Part of AAA domain; Region: AAA_19; pfam13245 406425020722 Family description; Region: UvrD_C_2; pfam13538 406425020723 BetR domain; Region: BetR; pfam08667 406425020724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020725 active site 406425020726 phosphorylation site [posttranslational modification] 406425020727 intermolecular recognition site; other site 406425020728 dimerization interface [polypeptide binding]; other site 406425020729 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425020730 Ion channel; Region: Ion_trans_2; pfam07885 406425020731 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 406425020732 TrkA-N domain; Region: TrkA_N; pfam02254 406425020733 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 406425020734 active site 406425020735 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 406425020736 dimer interface [polypeptide binding]; other site 406425020737 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 406425020738 Ligand Binding Site [chemical binding]; other site 406425020739 Molecular Tunnel; other site 406425020740 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425020741 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425020742 metal binding site [ion binding]; metal-binding site 406425020743 active site 406425020744 I-site; other site 406425020745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020747 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425020748 dimerization interface [polypeptide binding]; other site 406425020749 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 406425020750 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 406425020751 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425020752 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425020753 NAD(P) binding site [chemical binding]; other site 406425020754 catalytic residues [active] 406425020755 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 406425020756 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425020757 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425020758 metal binding site [ion binding]; metal-binding site 406425020759 putative dimer interface [polypeptide binding]; other site 406425020760 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020761 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425020762 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 406425020763 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425020764 substrate binding pocket [chemical binding]; other site 406425020765 membrane-bound complex binding site; other site 406425020766 hinge residues; other site 406425020767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020768 D-galactonate transporter; Region: 2A0114; TIGR00893 406425020769 putative substrate translocation pore; other site 406425020770 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 406425020771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020773 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425020774 putative dimerization interface [polypeptide binding]; other site 406425020775 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425020776 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425020777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425020778 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425020779 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425020780 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425020781 active site 406425020782 catalytic tetrad [active] 406425020783 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425020784 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 406425020785 NADP binding site [chemical binding]; other site 406425020786 dimer interface [polypeptide binding]; other site 406425020787 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425020788 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425020789 putative DNA binding site [nucleotide binding]; other site 406425020790 putative Zn2+ binding site [ion binding]; other site 406425020791 AsnC family; Region: AsnC_trans_reg; pfam01037 406425020792 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 406425020793 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 406425020794 homodimer interface [polypeptide binding]; other site 406425020795 substrate-cofactor binding pocket; other site 406425020796 catalytic residue [active] 406425020797 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 406425020798 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 406425020799 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 406425020800 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 406425020801 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 406425020802 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425020803 motif II; other site 406425020804 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 406425020805 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020806 putative substrate translocation pore; other site 406425020807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020808 Response regulator receiver domain; Region: Response_reg; pfam00072 406425020809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020810 active site 406425020811 phosphorylation site [posttranslational modification] 406425020812 intermolecular recognition site; other site 406425020813 dimerization interface [polypeptide binding]; other site 406425020814 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425020815 DNA binding residues [nucleotide binding] 406425020816 dimerization interface [polypeptide binding]; other site 406425020817 Na binding site [ion binding]; other site 406425020818 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425020819 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425020820 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425020821 dimer interface [polypeptide binding]; other site 406425020822 phosphorylation site [posttranslational modification] 406425020823 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425020824 ATP binding site [chemical binding]; other site 406425020825 Mg2+ binding site [ion binding]; other site 406425020826 G-X-G motif; other site 406425020827 Response regulator receiver domain; Region: Response_reg; pfam00072 406425020828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020829 active site 406425020830 phosphorylation site [posttranslational modification] 406425020831 intermolecular recognition site; other site 406425020832 dimerization interface [polypeptide binding]; other site 406425020833 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 406425020834 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425020835 putative ligand binding site [chemical binding]; other site 406425020836 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425020837 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425020838 TM-ABC transporter signature motif; other site 406425020839 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425020840 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425020841 TM-ABC transporter signature motif; other site 406425020842 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 406425020843 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425020844 Walker A/P-loop; other site 406425020845 ATP binding site [chemical binding]; other site 406425020846 Q-loop/lid; other site 406425020847 ABC transporter signature motif; other site 406425020848 Walker B; other site 406425020849 D-loop; other site 406425020850 H-loop/switch region; other site 406425020851 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 406425020852 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425020853 Walker A/P-loop; other site 406425020854 ATP binding site [chemical binding]; other site 406425020855 Q-loop/lid; other site 406425020856 ABC transporter signature motif; other site 406425020857 Walker B; other site 406425020858 D-loop; other site 406425020859 H-loop/switch region; other site 406425020860 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 406425020861 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 406425020862 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 406425020863 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 406425020864 multimer interface [polypeptide binding]; other site 406425020865 active site 406425020866 catalytic triad [active] 406425020867 dimer interface [polypeptide binding]; other site 406425020868 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425020869 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425020870 trimer interface [polypeptide binding]; other site 406425020871 eyelet of channel; other site 406425020872 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425020873 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425020874 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020875 active site 406425020876 phosphorylation site [posttranslational modification] 406425020877 intermolecular recognition site; other site 406425020878 dimerization interface [polypeptide binding]; other site 406425020879 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425020880 DNA binding site [nucleotide binding] 406425020881 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425020882 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425020883 dimerization interface [polypeptide binding]; other site 406425020884 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425020885 ATP binding site [chemical binding]; other site 406425020886 Mg2+ binding site [ion binding]; other site 406425020887 G-X-G motif; other site 406425020888 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425020889 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 406425020890 active site 406425020891 phosphorylation site [posttranslational modification] 406425020892 intermolecular recognition site; other site 406425020893 dimerization interface [polypeptide binding]; other site 406425020894 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425020895 DNA binding site [nucleotide binding] 406425020896 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425020897 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425020898 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425020899 trimer interface [polypeptide binding]; other site 406425020900 eyelet of channel; other site 406425020901 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425020902 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425020903 HlyD family secretion protein; Region: HlyD_3; pfam13437 406425020904 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425020905 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425020906 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020907 active site 406425020908 phosphorylation site [posttranslational modification] 406425020909 intermolecular recognition site; other site 406425020910 dimerization interface [polypeptide binding]; other site 406425020911 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425020912 DNA binding site [nucleotide binding] 406425020913 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020915 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425020916 putative effector binding pocket; other site 406425020917 dimerization interface [polypeptide binding]; other site 406425020918 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 406425020919 classical (c) SDRs; Region: SDR_c; cd05233 406425020920 NAD(P) binding site [chemical binding]; other site 406425020921 active site 406425020922 Cytochrome c; Region: Cytochrom_C; pfam00034 406425020923 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425020924 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425020925 Cytochrome c; Region: Cytochrom_C; pfam00034 406425020926 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 406425020927 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 406425020928 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425020929 S-formylglutathione hydrolase; Region: PLN02442 406425020930 Putative esterase; Region: Esterase; pfam00756 406425020931 OpgC protein; Region: OpgC_C; pfam10129 406425020932 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425020933 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425020934 trimer interface [polypeptide binding]; other site 406425020935 eyelet of channel; other site 406425020936 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020937 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020938 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425020939 putative effector binding pocket; other site 406425020940 putative dimerization interface [polypeptide binding]; other site 406425020941 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425020942 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425020943 active site 406425020944 catalytic tetrad [active] 406425020945 Predicted ester cyclase [General function prediction only]; Region: COG5485 406425020946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020948 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 406425020949 putative dimerization interface [polypeptide binding]; other site 406425020950 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425020951 Peptidase family M23; Region: Peptidase_M23; pfam01551 406425020952 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 406425020953 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425020954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425020955 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425020956 substrate binding pocket [chemical binding]; other site 406425020957 dimerization interface [polypeptide binding]; other site 406425020958 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 406425020959 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 406425020960 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425020961 Walker A/P-loop; other site 406425020962 ATP binding site [chemical binding]; other site 406425020963 Q-loop/lid; other site 406425020964 ABC transporter signature motif; other site 406425020965 Walker B; other site 406425020966 D-loop; other site 406425020967 H-loop/switch region; other site 406425020968 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 406425020969 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 406425020970 Walker A/P-loop; other site 406425020971 ATP binding site [chemical binding]; other site 406425020972 Q-loop/lid; other site 406425020973 ABC transporter signature motif; other site 406425020974 Walker B; other site 406425020975 D-loop; other site 406425020976 H-loop/switch region; other site 406425020977 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 406425020978 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425020979 dimer interface [polypeptide binding]; other site 406425020980 conserved gate region; other site 406425020981 putative PBP binding loops; other site 406425020982 ABC-ATPase subunit interface; other site 406425020983 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 406425020984 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425020985 dimer interface [polypeptide binding]; other site 406425020986 conserved gate region; other site 406425020987 putative PBP binding loops; other site 406425020988 ABC-ATPase subunit interface; other site 406425020989 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 406425020990 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425020991 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 406425020992 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425020993 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425020994 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 406425020995 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 406425020996 Cupin; Region: Cupin_1; smart00835 406425020997 Cupin; Region: Cupin_1; smart00835 406425020998 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 406425020999 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425021000 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 406425021001 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425021002 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425021003 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021004 putative substrate translocation pore; other site 406425021005 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021006 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425021007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425021008 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425021009 putative effector binding pocket; other site 406425021010 dimerization interface [polypeptide binding]; other site 406425021011 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425021012 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 406425021013 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 406425021014 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 406425021015 putative molybdopterin cofactor binding site [chemical binding]; other site 406425021016 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 406425021017 putative molybdopterin cofactor binding site; other site 406425021018 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425021019 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425021020 DNA-binding site [nucleotide binding]; DNA binding site 406425021021 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425021022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425021023 homodimer interface [polypeptide binding]; other site 406425021024 catalytic residue [active] 406425021025 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 406425021026 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425021027 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 406425021028 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 406425021029 Sulfate transporter family; Region: Sulfate_transp; pfam00916 406425021030 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 406425021031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425021032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425021033 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425021034 dimerization interface [polypeptide binding]; other site 406425021035 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425021036 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021037 putative substrate translocation pore; other site 406425021038 Isochorismatase family; Region: Isochorismatase; pfam00857 406425021039 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 406425021040 catalytic triad [active] 406425021041 conserved cis-peptide bond; other site 406425021042 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425021043 MarR family; Region: MarR; pfam01047 406425021044 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 406425021045 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 406425021046 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425021047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425021048 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425021049 dimerization interface [polypeptide binding]; other site 406425021050 substrate binding pocket [chemical binding]; other site 406425021051 magnesium-transporting ATPase; Provisional; Region: PRK15122 406425021052 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 406425021053 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 406425021054 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 406425021055 Soluble P-type ATPase [General function prediction only]; Region: COG4087 406425021056 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 406425021057 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 406425021058 active site 406425021059 catalytic triad [active] 406425021060 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 406425021061 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425021062 substrate binding pocket [chemical binding]; other site 406425021063 membrane-bound complex binding site; other site 406425021064 hinge residues; other site 406425021065 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 406425021066 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021067 putative substrate translocation pore; other site 406425021068 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 406425021069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 406425021070 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 406425021071 Transglycosylase; Region: Transgly; pfam00912 406425021072 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 406425021073 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 406425021074 Bacterial Ig-like domain; Region: Big_5; pfam13205 406425021075 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 406425021076 MG2 domain; Region: A2M_N; pfam01835 406425021077 Alpha-2-macroglobulin family; Region: A2M; pfam00207 406425021078 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 406425021079 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 406425021080 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425021081 Cytochrome c; Region: Cytochrom_C; pfam00034 406425021082 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425021083 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425021084 Cytochrome c; Region: Cytochrom_C; pfam00034 406425021085 Predicted membrane protein [Function unknown]; Region: COG2259 406425021086 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425021087 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425021088 trimer interface [polypeptide binding]; other site 406425021089 eyelet of channel; other site 406425021090 Isochorismatase family; Region: Isochorismatase; pfam00857 406425021091 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 406425021092 catalytic triad [active] 406425021093 conserved cis-peptide bond; other site 406425021094 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021095 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425021096 putative substrate translocation pore; other site 406425021097 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425021098 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425021099 metal binding site [ion binding]; metal-binding site 406425021100 putative dimer interface [polypeptide binding]; other site 406425021101 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425021102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425021103 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425021104 dimerization interface [polypeptide binding]; other site 406425021105 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 406425021106 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 406425021107 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 406425021108 Cl- selectivity filter; other site 406425021109 Cl- binding residues [ion binding]; other site 406425021110 pore gating glutamate residue; other site 406425021111 dimer interface [polypeptide binding]; other site 406425021112 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 406425021113 FOG: CBS domain [General function prediction only]; Region: COG0517 406425021114 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425021115 MarR family; Region: MarR_2; pfam12802 406425021116 MarR family; Region: MarR_2; cl17246 406425021117 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 406425021118 HPP family; Region: HPP; pfam04982 406425021119 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 406425021120 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 406425021121 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425021122 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425021123 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425021124 putative effector binding pocket; other site 406425021125 dimerization interface [polypeptide binding]; other site 406425021126 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021127 D-galactonate transporter; Region: 2A0114; TIGR00893 406425021128 putative substrate translocation pore; other site 406425021129 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 406425021130 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 406425021131 putative ligand binding site [chemical binding]; other site 406425021132 NAD binding site [chemical binding]; other site 406425021133 catalytic site [active] 406425021134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425021135 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425021136 dimerization interface [polypeptide binding]; other site 406425021137 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 406425021138 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 406425021139 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 406425021140 DctM-like transporters; Region: DctM; pfam06808 406425021141 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 406425021142 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425021143 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425021144 DNA binding site [nucleotide binding] 406425021145 domain linker motif; other site 406425021146 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_10; cd06292 406425021147 putative dimerization interface [polypeptide binding]; other site 406425021148 putative ligand binding site [chemical binding]; other site 406425021149 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 406425021150 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 406425021151 putative ligand binding site [chemical binding]; other site 406425021152 putative NAD binding site [chemical binding]; other site 406425021153 catalytic site [active] 406425021154 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425021155 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425021156 active site 406425021157 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 406425021158 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 406425021159 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 406425021160 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425021161 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425021162 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 406425021163 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 406425021164 active site 406425021165 AMP binding site [chemical binding]; other site 406425021166 homodimer interface [polypeptide binding]; other site 406425021167 acyl-activating enzyme (AAE) consensus motif; other site 406425021168 CoA binding site [chemical binding]; other site 406425021169 enoyl-CoA hydratase; Provisional; Region: PRK05995 406425021170 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425021171 substrate binding site [chemical binding]; other site 406425021172 oxyanion hole (OAH) forming residues; other site 406425021173 trimer interface [polypeptide binding]; other site 406425021174 MarC family integral membrane protein; Region: MarC; cl00919 406425021175 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425021176 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425021177 active site 406425021178 catalytic tetrad [active] 406425021179 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425021180 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 406425021181 putative NAD(P) binding site [chemical binding]; other site 406425021182 catalytic Zn binding site [ion binding]; other site 406425021183 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 406425021184 Coenzyme A binding pocket [chemical binding]; other site 406425021185 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 406425021186 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 406425021187 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 406425021188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425021189 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425021190 Coenzyme A binding pocket [chemical binding]; other site 406425021191 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425021192 DNA-binding site [nucleotide binding]; DNA binding site 406425021193 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425021194 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425021195 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425021196 homodimer interface [polypeptide binding]; other site 406425021197 catalytic residue [active] 406425021198 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 406425021199 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 406425021200 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425021201 protein binding site [polypeptide binding]; other site 406425021202 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425021203 protein binding site [polypeptide binding]; other site 406425021204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021205 putative substrate translocation pore; other site 406425021206 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 406425021207 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 406425021208 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 406425021209 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425021210 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425021211 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 406425021212 putative uracil binding site [chemical binding]; other site 406425021213 putative active site [active] 406425021214 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425021215 NMT1-like family; Region: NMT1_2; pfam13379 406425021216 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 406425021217 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425021218 active site 406425021219 phosphorylation site [posttranslational modification] 406425021220 intermolecular recognition site; other site 406425021221 dimerization interface [polypeptide binding]; other site 406425021222 ANTAR domain; Region: ANTAR; pfam03861 406425021223 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 406425021224 active site 406425021225 SAM binding site [chemical binding]; other site 406425021226 homodimer interface [polypeptide binding]; other site 406425021227 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 406425021228 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021229 putative substrate translocation pore; other site 406425021230 nitrite reductase subunit NirD; Provisional; Region: PRK14989 406425021231 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 406425021232 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425021233 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 406425021234 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425021235 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 406425021236 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 406425021237 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 406425021238 [4Fe-4S] binding site [ion binding]; other site 406425021239 molybdopterin cofactor binding site; other site 406425021240 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 406425021241 molybdopterin cofactor binding site; other site 406425021242 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 406425021243 Flavodoxin; Region: Flavodoxin_1; pfam00258 406425021244 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 406425021245 FAD binding pocket [chemical binding]; other site 406425021246 FAD binding motif [chemical binding]; other site 406425021247 catalytic residues [active] 406425021248 NAD binding pocket [chemical binding]; other site 406425021249 phosphate binding motif [ion binding]; other site 406425021250 beta-alpha-beta structure motif; other site 406425021251 short chain dehydrogenase; Provisional; Region: PRK09291 406425021252 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425021253 NADP binding site [chemical binding]; other site 406425021254 active site 406425021255 steroid binding site; other site 406425021256 Domain of unknown function (DUF336); Region: DUF336; pfam03928 406425021257 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425021258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425021259 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425021260 putative effector binding pocket; other site 406425021261 putative dimerization interface [polypeptide binding]; other site 406425021262 Predicted integral membrane protein [Function unknown]; Region: COG0392 406425021263 Uncharacterized conserved protein [Function unknown]; Region: COG2898 406425021264 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 406425021265 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 406425021266 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 406425021267 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 406425021268 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 406425021269 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425021270 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425021271 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425021272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425021273 DNA-binding site [nucleotide binding]; DNA binding site 406425021274 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425021275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425021276 homodimer interface [polypeptide binding]; other site 406425021277 catalytic residue [active] 406425021278 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021279 D-galactonate transporter; Region: 2A0114; TIGR00893 406425021280 putative substrate translocation pore; other site 406425021281 mannonate dehydratase; Provisional; Region: PRK03906 406425021282 mannonate dehydratase; Region: uxuA; TIGR00695 406425021283 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425021284 DNA-binding site [nucleotide binding]; DNA binding site 406425021285 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425021286 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 406425021287 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425021288 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 406425021289 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425021290 dimerization interface [polypeptide binding]; other site 406425021291 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425021292 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425021293 metal binding site [ion binding]; metal-binding site 406425021294 active site 406425021295 I-site; other site 406425021296 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425021297 transcriptional regulator, ArgP family; Region: argP; TIGR03298 406425021298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 406425021299 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425021300 dimerization interface [polypeptide binding]; other site 406425021301 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 406425021302 aromatic amino acid exporter; Provisional; Region: PRK11689 406425021303 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 406425021304 active site 406425021305 metal binding site [ion binding]; metal-binding site 406425021306 RNA polymerase sigma factor; Reviewed; Region: PRK05602 406425021307 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425021308 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425021309 Heavy-metal resistance; Region: Metal_resist; pfam13801 406425021310 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 406425021311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 406425021312 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 406425021313 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 406425021314 Int/Topo IB signature motif; other site 406425021315 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 406425021316 putative transporter; Provisional; Region: PRK10504 406425021317 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021318 putative substrate translocation pore; other site 406425021319 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021320 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425021321 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 406425021322 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 406425021323 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425021324 oligomeric interface; other site 406425021325 putative active site [active] 406425021326 homodimer interface [polypeptide binding]; other site 406425021327 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 406425021328 DNA-binding site [nucleotide binding]; DNA binding site 406425021329 RNA-binding motif; other site 406425021330 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 406425021331 rRNA binding site [nucleotide binding]; other site 406425021332 predicted 30S ribosome binding site; other site 406425021333 Phosphoesterase family; Region: Phosphoesterase; pfam04185 406425021334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021335 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425021336 putative substrate translocation pore; other site 406425021337 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 406425021338 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 406425021339 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 406425021340 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425021341 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425021342 putative DNA binding site [nucleotide binding]; other site 406425021343 putative Zn2+ binding site [ion binding]; other site 406425021344 AsnC family; Region: AsnC_trans_reg; pfam01037 406425021345 LysE type translocator; Region: LysE; cl00565 406425021346 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425021347 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 406425021348 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425021349 WHG domain; Region: WHG; pfam13305 406425021350 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 406425021351 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425021352 N-terminal plug; other site 406425021353 ligand-binding site [chemical binding]; other site 406425021354 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 406425021355 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 406425021356 tetramer interface [polypeptide binding]; other site 406425021357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425021358 catalytic residue [active] 406425021359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 406425021360 YheO-like PAS domain; Region: PAS_6; pfam08348 406425021361 HTH domain; Region: HTH_22; pfam13309 406425021362 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 406425021363 putative deacylase active site [active] 406425021364 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425021365 tetramer interface [polypeptide binding]; other site 406425021366 active site 406425021367 Mg2+/Mn2+ binding site [ion binding]; other site 406425021368 isocitrate lyase; Region: PLN02892 406425021369 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 406425021370 active site 406425021371 substrate-binding site [chemical binding]; other site 406425021372 metal-binding site [ion binding] 406425021373 GTP binding site [chemical binding]; other site 406425021374 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 406425021375 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 406425021376 FtsH Extracellular; Region: FtsH_ext; pfam06480 406425021377 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 406425021378 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425021379 Walker A motif; other site 406425021380 ATP binding site [chemical binding]; other site 406425021381 Walker B motif; other site 406425021382 arginine finger; other site 406425021383 Peptidase family M41; Region: Peptidase_M41; pfam01434 406425021384 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 406425021385 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 406425021386 active site 406425021387 homotetramer interface [polypeptide binding]; other site 406425021388 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425021389 dimerization interface [polypeptide binding]; other site 406425021390 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425021391 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425021392 dimer interface [polypeptide binding]; other site 406425021393 putative CheW interface [polypeptide binding]; other site 406425021394 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 406425021395 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425021396 N-terminal plug; other site 406425021397 ligand-binding site [chemical binding]; other site 406425021398 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 406425021399 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 406425021400 NAD binding site [chemical binding]; other site 406425021401 substrate binding site [chemical binding]; other site 406425021402 catalytic Zn binding site [ion binding]; other site 406425021403 tetramer interface [polypeptide binding]; other site 406425021404 structural Zn binding site [ion binding]; other site 406425021405 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 406425021406 Asp-box motif; other site 406425021407 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425021408 MarR family; Region: MarR; pfam01047 406425021409 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 406425021410 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 406425021411 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425021412 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425021413 substrate binding pocket [chemical binding]; other site 406425021414 membrane-bound complex binding site; other site 406425021415 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425021416 active site 406425021417 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 406425021418 dimer interface [polypeptide binding]; other site 406425021419 non-prolyl cis peptide bond; other site 406425021420 insertion regions; other site 406425021421 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425021422 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425021423 substrate binding pocket [chemical binding]; other site 406425021424 membrane-bound complex binding site; other site 406425021425 hinge residues; other site 406425021426 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425021427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425021428 dimer interface [polypeptide binding]; other site 406425021429 conserved gate region; other site 406425021430 putative PBP binding loops; other site 406425021431 ABC-ATPase subunit interface; other site 406425021432 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425021433 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425021434 Walker A/P-loop; other site 406425021435 ATP binding site [chemical binding]; other site 406425021436 Q-loop/lid; other site 406425021437 ABC transporter signature motif; other site 406425021438 Walker B; other site 406425021439 D-loop; other site 406425021440 H-loop/switch region; other site 406425021441 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 406425021442 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425021443 active site 406425021444 non-prolyl cis peptide bond; other site 406425021445 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 406425021446 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425021447 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425021448 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425021449 substrate binding pocket [chemical binding]; other site 406425021450 membrane-bound complex binding site; other site 406425021451 hinge residues; other site 406425021452 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425021453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425021454 Coenzyme A binding pocket [chemical binding]; other site 406425021455 recombination associated protein; Reviewed; Region: rdgC; PRK00321 406425021456 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 406425021457 Double zinc ribbon; Region: DZR; pfam12773 406425021458 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 406425021459 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 406425021460 putative active site [active] 406425021461 Zn binding site [ion binding]; other site 406425021462 PAS domain; Region: PAS; smart00091 406425021463 PAS fold; Region: PAS_7; pfam12860 406425021464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 406425021465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425021466 metal binding site [ion binding]; metal-binding site 406425021467 active site 406425021468 I-site; other site 406425021469 Probable transposase; Region: OrfB_IS605; pfam01385 406425021470 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 406425021471 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 406425021472 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425021473 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425021474 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425021475 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425021476 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425021477 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425021478 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425021479 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425021480 Cytochrome c; Region: Cytochrom_C; pfam00034 406425021481 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425021482 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 406425021483 ligand binding site [chemical binding]; other site 406425021484 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 406425021485 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425021486 trimer interface [polypeptide binding]; other site 406425021487 eyelet of channel; other site 406425021488 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425021489 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425021490 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 406425021491 Cytochrome P450; Region: p450; cl12078 406425021492 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 406425021493 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 406425021494 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425021495 catalytic residue [active] 406425021496 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 406425021497 ligand-binding site [chemical binding]; other site 406425021498 TIGR03032 family protein; Region: TIGR03032 406425021499 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 406425021500 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 406425021501 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425021502 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 406425021503 putative active site [active] 406425021504 catalytic triad [active] 406425021505 putative dimer interface [polypeptide binding]; other site 406425021506 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425021507 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 406425021508 putative ligand binding site [chemical binding]; other site 406425021509 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 406425021510 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425021511 TM-ABC transporter signature motif; other site 406425021512 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 406425021513 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425021514 TM-ABC transporter signature motif; other site 406425021515 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 406425021516 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425021517 Walker A/P-loop; other site 406425021518 ATP binding site [chemical binding]; other site 406425021519 Q-loop/lid; other site 406425021520 ABC transporter signature motif; other site 406425021521 Walker B; other site 406425021522 D-loop; other site 406425021523 H-loop/switch region; other site 406425021524 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 406425021525 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425021526 Walker A/P-loop; other site 406425021527 ATP binding site [chemical binding]; other site 406425021528 Q-loop/lid; other site 406425021529 ABC transporter signature motif; other site 406425021530 Walker B; other site 406425021531 D-loop; other site 406425021532 H-loop/switch region; other site 406425021533 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 406425021534 Amidase; Region: Amidase; cl11426 406425021535 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425021536 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 406425021537 ligand binding site [chemical binding]; other site 406425021538 regulator interaction site; other site 406425021539 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 406425021540 ANTAR domain; Region: ANTAR; pfam03861 406425021541 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 406425021542 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 406425021543 ATP binding site [chemical binding]; other site 406425021544 Walker B motif; other site 406425021545 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 406425021546 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 406425021547 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425021548 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 406425021549 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 406425021550 Type II/IV secretion system protein; Region: T2SE; pfam00437 406425021551 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 406425021552 Walker A motif; other site 406425021553 ATP binding site [chemical binding]; other site 406425021554 Walker B motif; other site 406425021555 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 406425021556 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 406425021557 PilS N terminal; Region: PilS; pfam08805 406425021558 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 406425021559 Walker A motif; other site 406425021560 ATP binding site [chemical binding]; other site 406425021561 Walker B motif; other site 406425021562 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425021563 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425021564 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 406425021565 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425021566 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425021567 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425021568 ATP binding site [chemical binding]; other site 406425021569 Mg2+ binding site [ion binding]; other site 406425021570 G-X-G motif; other site 406425021571 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425021572 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425021573 active site 406425021574 phosphorylation site [posttranslational modification] 406425021575 intermolecular recognition site; other site 406425021576 dimerization interface [polypeptide binding]; other site 406425021577 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425021578 DNA binding site [nucleotide binding] 406425021579 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 406425021580 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425021581 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 406425021582 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 406425021583 type III secretion system protein YscR; Provisional; Region: PRK12797 406425021584 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 406425021585 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 406425021586 Type III secretion protein (HpaP); Region: HpaP; pfam09483 406425021587 type III secretion protein, HrcV family; Region: hrcV; TIGR01399 406425021588 FHIPEP family; Region: FHIPEP; pfam00771 406425021589 type III secretion system protein HrcU; Validated; Region: PRK09108 406425021590 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 406425021591 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 406425021592 Bacterial type III secretion protein (HrpB2); Region: HrpB2; pfam09487 406425021593 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 406425021594 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 406425021595 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 406425021596 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 406425021597 type III secretion system protein HrpB; Validated; Region: PRK09098 406425021598 Flagellar assembly protein FliH; Region: FliH; pfam02108 406425021599 type III secretion system ATPase; Provisional; Region: PRK09099 406425021600 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 406425021601 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 406425021602 Walker A motif/ATP binding site; other site 406425021603 Walker B motif; other site 406425021604 Bacterial type III secretion protein (HrpB7); Region: HrpB7; pfam09486 406425021605 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 406425021606 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425021607 Homeodomain-like domain; Region: HTH_23; pfam13384 406425021608 Winged helix-turn helix; Region: HTH_29; pfam13551 406425021609 Homeodomain-like domain; Region: HTH_32; pfam13565 406425021610 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 406425021611 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 406425021612 active site 406425021613 nucleophile elbow; other site 406425021614 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425021615 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 406425021616 tetramerization interface [polypeptide binding]; other site 406425021617 NAD(P) binding site [chemical binding]; other site 406425021618 catalytic residues [active] 406425021619 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425021620 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 406425021621 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425021622 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425021623 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425021624 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 406425021625 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425021626 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425021627 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425021628 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425021629 catalytic loop [active] 406425021630 iron binding site [ion binding]; other site 406425021631 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425021632 Uncharacterized conserved protein [Function unknown]; Region: COG1359 406425021633 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 406425021634 Prostaglandin dehydrogenases; Region: PGDH; cd05288 406425021635 NAD(P) binding site [chemical binding]; other site 406425021636 substrate binding site [chemical binding]; other site 406425021637 dimer interface [polypeptide binding]; other site 406425021638 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425021639 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 406425021640 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 406425021641 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 406425021642 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425021643 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425021644 salt bridge; other site 406425021645 non-specific DNA binding site [nucleotide binding]; other site 406425021646 sequence-specific DNA binding site [nucleotide binding]; other site 406425021647 HipA N-terminal domain; Region: couple_hipA; TIGR03071 406425021648 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 406425021649 HipA-like N-terminal domain; Region: HipA_N; pfam07805 406425021650 HipA-like C-terminal domain; Region: HipA_C; pfam07804 406425021651 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 406425021652 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 406425021653 dimer interface [polypeptide binding]; other site 406425021654 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 406425021655 active site 406425021656 Fe binding site [ion binding]; other site 406425021657 shikimate transporter; Provisional; Region: PRK09952 406425021658 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425021659 putative substrate translocation pore; other site 406425021660 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 406425021661 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 406425021662 putative active site [active] 406425021663 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 406425021664 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 406425021665 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 406425021666 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425021667 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 406425021668 DEAD_2; Region: DEAD_2; pfam06733 406425021669 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 406425021670 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 406425021671 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 406425021672 FOG: CBS domain [General function prediction only]; Region: COG0517 406425021673 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 406425021674 PRC-barrel domain; Region: PRC; pfam05239 406425021675 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 406425021676 BON domain; Region: BON; pfam04972 406425021677 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425021678 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425021679 putative active site [active] 406425021680 heme pocket [chemical binding]; other site 406425021681 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425021682 dimer interface [polypeptide binding]; other site 406425021683 phosphorylation site [posttranslational modification] 406425021684 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425021685 ATP binding site [chemical binding]; other site 406425021686 G-X-G motif; other site 406425021687 Response regulator receiver domain; Region: Response_reg; pfam00072 406425021688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425021689 active site 406425021690 phosphorylation site [posttranslational modification] 406425021691 intermolecular recognition site; other site 406425021692 dimerization interface [polypeptide binding]; other site 406425021693 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 406425021694 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425021695 Walker A motif; other site 406425021696 ATP binding site [chemical binding]; other site 406425021697 Walker B motif; other site 406425021698 arginine finger; other site 406425021699 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 406425021700 Cache domain; Region: Cache_1; pfam02743 406425021701 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425021702 dimerization interface [polypeptide binding]; other site 406425021703 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425021704 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425021705 dimer interface [polypeptide binding]; other site 406425021706 putative CheW interface [polypeptide binding]; other site 406425021707 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 406425021708 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425021709 Ligand Binding Site [chemical binding]; other site 406425021710 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425021711 Ligand Binding Site [chemical binding]; other site 406425021712 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 406425021713 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 406425021714 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 406425021715 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 406425021716 active site residue [active] 406425021717 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 406425021718 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425021719 Ligand Binding Site [chemical binding]; other site 406425021720 PAS domain S-box; Region: sensory_box; TIGR00229 406425021721 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425021722 putative active site [active] 406425021723 heme pocket [chemical binding]; other site 406425021724 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 406425021725 Histidine kinase; Region: HisKA_3; pfam07730 406425021726 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425021727 ATP binding site [chemical binding]; other site 406425021728 Mg2+ binding site [ion binding]; other site 406425021729 G-X-G motif; other site 406425021730 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425021731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425021732 active site 406425021733 phosphorylation site [posttranslational modification] 406425021734 intermolecular recognition site; other site 406425021735 dimerization interface [polypeptide binding]; other site 406425021736 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425021737 DNA binding residues [nucleotide binding] 406425021738 dimerization interface [polypeptide binding]; other site 406425021739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 406425021740 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425021741 PilZ domain; Region: PilZ; pfam07238 406425021742 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 406425021743 Transglycosylase; Region: Transgly; pfam00912 406425021744 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 406425021745 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 406425021746 Proline racemase; Region: Pro_racemase; pfam05544 406425021747 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425021748 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425021749 dimerization interface [polypeptide binding]; other site 406425021750 ligand binding site [chemical binding]; other site 406425021751 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425021752 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425021753 DNA-binding site [nucleotide binding]; DNA binding site 406425021754 FCD domain; Region: FCD; pfam07729 406425021755 ornithine cyclodeaminase; Validated; Region: PRK07340 406425021756 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 406425021757 Response regulator receiver domain; Region: Response_reg; pfam00072 406425021758 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425021759 active site 406425021760 phosphorylation site [posttranslational modification] 406425021761 intermolecular recognition site; other site 406425021762 dimerization interface [polypeptide binding]; other site 406425021763 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 406425021764 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425021765 ligand binding site [chemical binding]; other site 406425021766 flexible hinge region; other site 406425021767 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 406425021768 putative switch regulator; other site 406425021769 non-specific DNA interactions [nucleotide binding]; other site 406425021770 DNA binding site [nucleotide binding] 406425021771 sequence specific DNA binding site [nucleotide binding]; other site 406425021772 putative cAMP binding site [chemical binding]; other site 406425021773 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 406425021774 Protein of unknown function, DUF488; Region: DUF488; cl01246 406425021775 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 406425021776 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425021777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425021778 homodimer interface [polypeptide binding]; other site 406425021779 catalytic residue [active] 406425021780 aromatic amino acid transporter; Provisional; Region: PRK10238 406425021781 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425021782 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 406425021783 putative DNA binding site [nucleotide binding]; other site 406425021784 putative Zn2+ binding site [ion binding]; other site 406425021785 AsnC family; Region: AsnC_trans_reg; pfam01037 406425021786 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 406425021787 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 406425021788 EamA-like transporter family; Region: EamA; pfam00892 406425021789 Phosphoesterase family; Region: Phosphoesterase; pfam04185 406425021790 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 406425021791 Methyltransferase domain; Region: Methyltransf_31; pfam13847 406425021792 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425021793 S-adenosylmethionine binding site [chemical binding]; other site 406425021794 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425021795 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 406425021796 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425021797 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 406425021798 Walker A/P-loop; other site 406425021799 ATP binding site [chemical binding]; other site 406425021800 Q-loop/lid; other site 406425021801 ABC transporter signature motif; other site 406425021802 Walker B; other site 406425021803 D-loop; other site 406425021804 H-loop/switch region; other site 406425021805 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425021806 dimer interface [polypeptide binding]; other site 406425021807 conserved gate region; other site 406425021808 putative PBP binding loops; other site 406425021809 ABC-ATPase subunit interface; other site 406425021810 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425021811 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425021812 substrate binding pocket [chemical binding]; other site 406425021813 membrane-bound complex binding site; other site 406425021814 hinge residues; other site 406425021815 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425021816 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425021817 Bacterial transcriptional regulator; Region: IclR; pfam01614