-- dump date 20140619_013549 -- class Genbank::misc_feature -- table misc_feature_note -- id note 416344000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 416344000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 416344000003 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 416344000004 Walker A motif; other site 416344000005 ATP binding site [chemical binding]; other site 416344000006 Walker B motif; other site 416344000007 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 416344000008 arginine finger; other site 416344000009 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 416344000010 DnaA box-binding interface [nucleotide binding]; other site 416344000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 416344000012 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 416344000013 putative DNA binding surface [nucleotide binding]; other site 416344000014 dimer interface [polypeptide binding]; other site 416344000015 beta-clamp/clamp loader binding surface; other site 416344000016 beta-clamp/translesion DNA polymerase binding surface; other site 416344000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 416344000018 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 416344000019 ATP binding site [chemical binding]; other site 416344000020 Mg2+ binding site [ion binding]; other site 416344000021 G-X-G motif; other site 416344000022 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 416344000023 anchoring element; other site 416344000024 dimer interface [polypeptide binding]; other site 416344000025 ATP binding site [chemical binding]; other site 416344000026 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 416344000027 active site 416344000028 putative metal-binding site [ion binding]; other site 416344000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 416344000030 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344000031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 416344000032 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344000033 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 416344000034 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344000035 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344000036 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 416344000037 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 416344000038 putative heme binding pocket [chemical binding]; other site 416344000039 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344000040 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 416344000041 DNA binding residues [nucleotide binding] 416344000042 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 416344000043 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 416344000044 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344000045 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 416344000046 Uncharacterized conserved protein [Function unknown]; Region: COG2128 416344000047 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 416344000048 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 416344000049 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 416344000050 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 416344000051 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 416344000052 Restriction endonuclease [Defense mechanisms]; Region: COG3587 416344000053 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 416344000054 ATP binding site [chemical binding]; other site 416344000055 putative Mg++ binding site [ion binding]; other site 416344000056 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 416344000057 DNA methylase; Region: N6_N4_Mtase; pfam01555 416344000058 DNA methylase; Region: N6_N4_Mtase; cl17433 416344000059 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 416344000060 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344000061 eyelet of channel; other site 416344000062 trimer interface [polypeptide binding]; other site 416344000063 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 416344000064 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 416344000065 active site 416344000066 phosphorylation site [posttranslational modification] 416344000067 intermolecular recognition site; other site 416344000068 dimerization interface [polypeptide binding]; other site 416344000069 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 416344000070 DNA binding site [nucleotide binding] 416344000071 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 416344000072 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 416344000073 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 416344000074 dimer interface [polypeptide binding]; other site 416344000075 phosphorylation site [posttranslational modification] 416344000076 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 416344000077 ATP binding site [chemical binding]; other site 416344000078 Mg2+ binding site [ion binding]; other site 416344000079 G-X-G motif; other site 416344000080 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 416344000081 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 416344000082 dimer interface [polypeptide binding]; other site 416344000083 conserved gate region; other site 416344000084 putative PBP binding loops; other site 416344000085 ABC-ATPase subunit interface; other site 416344000086 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 416344000087 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 416344000088 Walker A/P-loop; other site 416344000089 ATP binding site [chemical binding]; other site 416344000090 Q-loop/lid; other site 416344000091 ABC transporter signature motif; other site 416344000092 Walker B; other site 416344000093 D-loop; other site 416344000094 H-loop/switch region; other site 416344000095 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 416344000096 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 416344000097 membrane-bound complex binding site; other site 416344000098 hinge residues; other site 416344000099 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 416344000100 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 416344000101 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 416344000102 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 416344000103 flagellar motor switch protein; Validated; Region: fliN; PRK05698 416344000104 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 416344000105 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 416344000106 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 416344000107 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 416344000108 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 416344000109 LrgA family; Region: LrgA; pfam03788 416344000110 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344000111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344000112 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 416344000113 putative dimerization interface [polypeptide binding]; other site 416344000114 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416344000115 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 416344000116 putative substrate translocation pore; other site 416344000117 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 416344000118 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344000119 MarR family; Region: MarR_2; cl17246 416344000120 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344000121 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 416344000122 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 416344000123 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 416344000124 GspL periplasmic domain; Region: GspL_C; pfam12693 416344000125 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 416344000126 type II secretion system protein I; Region: gspI; TIGR01707 416344000127 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 416344000128 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 416344000129 Type II transport protein GspH; Region: GspH; pfam12019 416344000130 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 416344000131 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 416344000132 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 416344000133 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 416344000134 type II secretion system protein F; Region: GspF; TIGR02120 416344000135 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344000136 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344000137 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 416344000138 type II secretion system protein E; Region: type_II_gspE; TIGR02533 416344000139 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 416344000140 Walker A motif; other site 416344000141 ATP binding site [chemical binding]; other site 416344000142 Walker B motif; other site 416344000143 type II secretion system protein D; Region: type_II_gspD; TIGR02517 416344000144 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 416344000145 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 416344000146 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 416344000147 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 416344000148 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 416344000149 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 416344000150 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 416344000151 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416344000152 catalytic residue [active] 416344000153 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 416344000154 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 416344000155 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 416344000156 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 416344000157 IHF dimer interface [polypeptide binding]; other site 416344000158 IHF - DNA interface [nucleotide binding]; other site 416344000159 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 416344000160 Uncharacterized conserved protein [Function unknown]; Region: COG4121 416344000161 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344000162 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 416344000163 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 416344000164 Transcriptional regulators [Transcription]; Region: MarR; COG1846 416344000165 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 416344000166 putative DNA binding site [nucleotide binding]; other site 416344000167 putative Zn2+ binding site [ion binding]; other site 416344000168 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 416344000169 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 416344000170 catalytic triad [active] 416344000171 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 416344000172 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 416344000173 active site 416344000174 FMN binding site [chemical binding]; other site 416344000175 substrate binding site [chemical binding]; other site 416344000176 homotetramer interface [polypeptide binding]; other site 416344000177 catalytic residue [active] 416344000178 Proteins containing SET domain [General function prediction only]; Region: COG2940 416344000179 SET domain; Region: SET; pfam00856 416344000180 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 416344000181 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344000182 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 416344000183 dimer interface [polypeptide binding]; other site 416344000184 phosphorylation site [posttranslational modification] 416344000185 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 416344000186 ATP binding site [chemical binding]; other site 416344000187 Mg2+ binding site [ion binding]; other site 416344000188 G-X-G motif; other site 416344000189 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344000190 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 416344000191 active site 416344000192 phosphorylation site [posttranslational modification] 416344000193 intermolecular recognition site; other site 416344000194 dimerization interface [polypeptide binding]; other site 416344000195 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 416344000196 DNA binding site [nucleotide binding] 416344000197 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 416344000198 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 416344000199 aromatic arch; other site 416344000200 DCoH dimer interaction site [polypeptide binding]; other site 416344000201 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 416344000202 DCoH tetramer interaction site [polypeptide binding]; other site 416344000203 substrate binding site [chemical binding]; other site 416344000204 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 416344000205 cofactor binding site; other site 416344000206 metal binding site [ion binding]; metal-binding site 416344000207 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344000208 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 416344000209 putative DNA binding site [nucleotide binding]; other site 416344000210 putative Zn2+ binding site [ion binding]; other site 416344000211 AsnC family; Region: AsnC_trans_reg; pfam01037 416344000212 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 416344000213 putative active site [active] 416344000214 putative metal binding residues [ion binding]; other site 416344000215 signature motif; other site 416344000216 putative triphosphate binding site [ion binding]; other site 416344000217 dimer interface [polypeptide binding]; other site 416344000218 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344000219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344000220 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 416344000221 dimerization interface [polypeptide binding]; other site 416344000222 choline dehydrogenase; Validated; Region: PRK02106 416344000223 lycopene cyclase; Region: lycopene_cycl; TIGR01789 416344000224 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 416344000225 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 416344000226 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 416344000227 Walker A/P-loop; other site 416344000228 ATP binding site [chemical binding]; other site 416344000229 Q-loop/lid; other site 416344000230 ABC transporter signature motif; other site 416344000231 Walker B; other site 416344000232 D-loop; other site 416344000233 H-loop/switch region; other site 416344000234 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 416344000235 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 416344000236 Walker A/P-loop; other site 416344000237 ATP binding site [chemical binding]; other site 416344000238 Q-loop/lid; other site 416344000239 ABC transporter signature motif; other site 416344000240 Walker B; other site 416344000241 D-loop; other site 416344000242 H-loop/switch region; other site 416344000243 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 416344000244 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 416344000245 putative ligand binding site [chemical binding]; other site 416344000246 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344000247 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 416344000248 TM-ABC transporter signature motif; other site 416344000249 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 416344000250 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 416344000251 TM-ABC transporter signature motif; other site 416344000252 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344000253 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 416344000254 putative ligand binding site [chemical binding]; other site 416344000255 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 416344000256 TM-ABC transporter signature motif; other site 416344000257 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 416344000258 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 416344000259 TM-ABC transporter signature motif; other site 416344000260 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 416344000261 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 416344000262 Walker A/P-loop; other site 416344000263 ATP binding site [chemical binding]; other site 416344000264 Q-loop/lid; other site 416344000265 ABC transporter signature motif; other site 416344000266 Walker B; other site 416344000267 D-loop; other site 416344000268 H-loop/switch region; other site 416344000269 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 416344000270 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 416344000271 Walker A/P-loop; other site 416344000272 ATP binding site [chemical binding]; other site 416344000273 Q-loop/lid; other site 416344000274 ABC transporter signature motif; other site 416344000275 Walker B; other site 416344000276 D-loop; other site 416344000277 H-loop/switch region; other site 416344000278 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 416344000279 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 416344000280 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 416344000281 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 416344000282 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 416344000283 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 416344000284 S-adenosylmethionine binding site [chemical binding]; other site 416344000285 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 416344000286 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 416344000287 P-loop; other site 416344000288 Magnesium ion binding site [ion binding]; other site 416344000289 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 416344000290 Magnesium ion binding site [ion binding]; other site 416344000291 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 416344000292 ParB-like nuclease domain; Region: ParBc; pfam02195 416344000293 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 416344000294 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 416344000295 transmembrane helices; other site 416344000296 ATP synthase I chain; Region: ATP_synt_I; pfam03899 416344000297 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 416344000298 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 416344000299 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 416344000300 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 416344000301 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 416344000302 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 416344000303 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 416344000304 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 416344000305 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 416344000306 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 416344000307 beta subunit interaction interface [polypeptide binding]; other site 416344000308 Walker A motif; other site 416344000309 ATP binding site [chemical binding]; other site 416344000310 Walker B motif; other site 416344000311 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 416344000312 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 416344000313 core domain interface [polypeptide binding]; other site 416344000314 delta subunit interface [polypeptide binding]; other site 416344000315 epsilon subunit interface [polypeptide binding]; other site 416344000316 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 416344000317 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 416344000318 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 416344000319 alpha subunit interaction interface [polypeptide binding]; other site 416344000320 Walker A motif; other site 416344000321 ATP binding site [chemical binding]; other site 416344000322 Walker B motif; other site 416344000323 inhibitor binding site; inhibition site 416344000324 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 416344000325 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 416344000326 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 416344000327 gamma subunit interface [polypeptide binding]; other site 416344000328 epsilon subunit interface [polypeptide binding]; other site 416344000329 LBP interface [polypeptide binding]; other site 416344000330 AMP-binding domain protein; Validated; Region: PRK08315 416344000331 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416344000332 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 416344000333 acyl-activating enzyme (AAE) consensus motif; other site 416344000334 putative AMP binding site [chemical binding]; other site 416344000335 putative active site [active] 416344000336 putative CoA binding site [chemical binding]; other site 416344000337 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 416344000338 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344000339 substrate binding pocket [chemical binding]; other site 416344000340 membrane-bound complex binding site; other site 416344000341 hinge residues; other site 416344000342 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 416344000343 substrate binding site [chemical binding]; other site 416344000344 active site 416344000345 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 416344000346 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 416344000347 ATP binding site [chemical binding]; other site 416344000348 putative Mg++ binding site [ion binding]; other site 416344000349 helicase superfamily c-terminal domain; Region: HELICc; smart00490 416344000350 nucleotide binding region [chemical binding]; other site 416344000351 ATP-binding site [chemical binding]; other site 416344000352 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 416344000353 Predicted transcriptional regulator [Transcription]; Region: COG3905 416344000354 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 416344000355 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 416344000356 Glutamate binding site [chemical binding]; other site 416344000357 NAD binding site [chemical binding]; other site 416344000358 catalytic residues [active] 416344000359 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 416344000360 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344000361 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 416344000362 dimerization interface [polypeptide binding]; other site 416344000363 ligand binding site [chemical binding]; other site 416344000364 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344000365 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 416344000366 active site 416344000367 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344000368 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344000369 putative aminotransferase; Provisional; Region: PRK12414 416344000370 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 416344000371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344000372 homodimer interface [polypeptide binding]; other site 416344000373 catalytic residue [active] 416344000374 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 416344000375 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 416344000376 substrate binding pocket [chemical binding]; other site 416344000377 membrane-bound complex binding site; other site 416344000378 hinge residues; other site 416344000379 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 416344000380 FAD binding domain; Region: FAD_binding_4; pfam01565 416344000381 Transcriptional regulator PadR-like family; Region: PadR; cl17335 416344000382 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 416344000383 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 416344000384 DNA binding residues [nucleotide binding] 416344000385 dimer interface [polypeptide binding]; other site 416344000386 putative metal binding site [ion binding]; other site 416344000387 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 416344000388 Heavy-metal-associated domain; Region: HMA; pfam00403 416344000389 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416344000390 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416344000391 Double zinc ribbon; Region: DZR; pfam12773 416344000392 Conserved TM helix; Region: TM_helix; pfam05552 416344000393 ethanolamine permease; Region: 2A0305; TIGR00908 416344000394 hypothetical protein; Provisional; Region: PHA02764 416344000395 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 416344000396 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 416344000397 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 416344000398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344000399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344000400 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 416344000401 putative effector binding pocket; other site 416344000402 putative dimerization interface [polypeptide binding]; other site 416344000403 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344000404 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 416344000405 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 416344000406 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 416344000407 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344000408 NAD(P) binding site [chemical binding]; other site 416344000409 catalytic residues [active] 416344000410 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 416344000411 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344000412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344000413 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416344000414 thiamine pyrophosphate protein; Validated; Region: PRK08199 416344000415 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416344000416 PYR/PP interface [polypeptide binding]; other site 416344000417 dimer interface [polypeptide binding]; other site 416344000418 TPP binding site [chemical binding]; other site 416344000419 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416344000420 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 416344000421 TPP-binding site [chemical binding]; other site 416344000422 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 416344000423 oligomeric interface; other site 416344000424 putative active site [active] 416344000425 homodimer interface [polypeptide binding]; other site 416344000426 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 416344000427 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 416344000428 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 416344000429 Alginate lyase; Region: Alginate_lyase; pfam05426 416344000430 glycine dehydrogenase; Provisional; Region: PRK05367 416344000431 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 416344000432 tetramer interface [polypeptide binding]; other site 416344000433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344000434 catalytic residue [active] 416344000435 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 416344000436 tetramer interface [polypeptide binding]; other site 416344000437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344000438 catalytic residue [active] 416344000439 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 416344000440 lipoyl attachment site [posttranslational modification]; other site 416344000441 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 416344000442 POPLD (NUC188) domain; Region: POPLD; pfam08170 416344000443 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 416344000444 putative oxidoreductase; Provisional; Region: PRK11579 416344000445 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416344000446 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 416344000447 active site 416344000448 catalytic triad [active] 416344000449 oxyanion hole [active] 416344000450 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 416344000451 Part of AAA domain; Region: AAA_19; pfam13245 416344000452 Family description; Region: UvrD_C_2; pfam13538 416344000453 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 416344000454 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344000455 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 416344000456 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344000457 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 416344000458 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 416344000459 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344000460 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344000461 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 416344000462 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 416344000463 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 416344000464 inhibitor-cofactor binding pocket; inhibition site 416344000465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344000466 catalytic residue [active] 416344000467 Methyltransferase domain; Region: Methyltransf_12; pfam08242 416344000468 WbqC-like protein family; Region: WbqC; pfam08889 416344000469 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344000470 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416344000471 TPR repeat; Region: TPR_11; pfam13414 416344000472 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 416344000473 binding surface 416344000474 TPR motif; other site 416344000475 TPR repeat; Region: TPR_11; pfam13414 416344000476 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 416344000477 binding surface 416344000478 TPR motif; other site 416344000479 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 416344000480 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 416344000481 TPR motif; other site 416344000482 binding surface 416344000483 TPR repeat; Region: TPR_11; pfam13414 416344000484 TPR repeat; Region: TPR_11; pfam13414 416344000485 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 416344000486 binding surface 416344000487 TPR motif; other site 416344000488 TPR repeat; Region: TPR_11; pfam13414 416344000489 TPR repeat; Region: TPR_11; pfam13414 416344000490 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 416344000491 binding surface 416344000492 TPR motif; other site 416344000493 Tetratricopeptide repeat; Region: TPR_12; pfam13424 416344000494 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 416344000495 binding surface 416344000496 TPR motif; other site 416344000497 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 416344000498 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 416344000499 Tetratricopeptide repeat; Region: TPR_12; pfam13424 416344000500 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 416344000501 binding surface 416344000502 TPR motif; other site 416344000503 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 416344000504 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 416344000505 binding surface 416344000506 TPR motif; other site 416344000507 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 416344000508 binding surface 416344000509 TPR motif; other site 416344000510 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 416344000511 TPR motif; other site 416344000512 binding surface 416344000513 Tetratricopeptide repeat; Region: TPR_12; pfam13424 416344000514 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 416344000515 Flagellar protein FliT; Region: FliT; pfam05400 416344000516 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 416344000517 flagellin; Provisional; Region: PRK12802 416344000518 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 416344000519 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 416344000520 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 416344000521 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 416344000522 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416344000523 nucleotide binding site [chemical binding]; other site 416344000524 putative hydrolase; Provisional; Region: PRK10976 416344000525 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 416344000526 active site 416344000527 motif I; other site 416344000528 motif II; other site 416344000529 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 416344000530 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 416344000531 amphipathic channel; other site 416344000532 Asn-Pro-Ala signature motifs; other site 416344000533 H-NS histone family; Region: Histone_HNS; pfam00816 416344000534 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344000535 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 416344000536 putative ADP-binding pocket [chemical binding]; other site 416344000537 transcriptional activator FlhD; Provisional; Region: PRK02909 416344000538 transcriptional activator FlhC; Provisional; Region: PRK12722 416344000539 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 416344000540 flagellar motor protein MotA; Validated; Region: PRK09110 416344000541 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 416344000542 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 416344000543 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344000544 ligand binding site [chemical binding]; other site 416344000545 Response regulator receiver domain; Region: Response_reg; pfam00072 416344000546 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 416344000547 active site 416344000548 phosphorylation site [posttranslational modification] 416344000549 intermolecular recognition site; other site 416344000550 dimerization interface [polypeptide binding]; other site 416344000551 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 416344000552 putative binding surface; other site 416344000553 active site 416344000554 CheY binding; Region: CheY-binding; pfam09078 416344000555 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 416344000556 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 416344000557 ATP binding site [chemical binding]; other site 416344000558 Mg2+ binding site [ion binding]; other site 416344000559 G-X-G motif; other site 416344000560 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 416344000561 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 416344000562 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 416344000563 dimer interface [polypeptide binding]; other site 416344000564 ligand binding site [chemical binding]; other site 416344000565 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 416344000566 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 416344000567 dimerization interface [polypeptide binding]; other site 416344000568 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344000569 dimer interface [polypeptide binding]; other site 416344000570 putative CheW interface [polypeptide binding]; other site 416344000571 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 416344000572 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 416344000573 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 416344000574 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 416344000575 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 416344000576 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 416344000577 active site 416344000578 phosphorylation site [posttranslational modification] 416344000579 intermolecular recognition site; other site 416344000580 dimerization interface [polypeptide binding]; other site 416344000581 CheB methylesterase; Region: CheB_methylest; pfam01339 416344000582 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 416344000583 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 416344000584 active site 416344000585 phosphorylation site [posttranslational modification] 416344000586 intermolecular recognition site; other site 416344000587 dimerization interface [polypeptide binding]; other site 416344000588 chemotaxis regulator CheZ; Provisional; Region: PRK11166 416344000589 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 416344000590 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 416344000591 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 416344000592 dimer interface [polypeptide binding]; other site 416344000593 Protein of unknown function (DUF805); Region: DUF805; pfam05656 416344000594 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 416344000595 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 416344000596 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 416344000597 FHIPEP family; Region: FHIPEP; pfam00771 416344000598 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 416344000599 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 416344000600 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 416344000601 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 416344000602 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344000603 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 416344000604 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 416344000605 DNA binding residues [nucleotide binding] 416344000606 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 416344000607 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 416344000608 homotetramer interface [polypeptide binding]; other site 416344000609 ligand binding site [chemical binding]; other site 416344000610 catalytic site [active] 416344000611 NAD binding site [chemical binding]; other site 416344000612 Predicted membrane protein [Function unknown]; Region: COG1950 416344000613 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 416344000614 FAD binding site [chemical binding]; other site 416344000615 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 416344000616 Amidase; Region: Amidase; cl11426 416344000617 Dienelactone hydrolase family; Region: DLH; pfam01738 416344000618 Nitronate monooxygenase; Region: NMO; pfam03060 416344000619 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 416344000620 FMN binding site [chemical binding]; other site 416344000621 substrate binding site [chemical binding]; other site 416344000622 putative catalytic residue [active] 416344000623 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344000624 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 416344000625 dimerization interface [polypeptide binding]; other site 416344000626 ligand binding site [chemical binding]; other site 416344000627 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344000628 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 416344000629 H-NS histone family; Region: Histone_HNS; pfam00816 416344000630 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 416344000631 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 416344000632 Cation efflux family; Region: Cation_efflux; pfam01545 416344000633 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344000634 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 416344000635 putative DNA binding site [nucleotide binding]; other site 416344000636 putative Zn2+ binding site [ion binding]; other site 416344000637 AsnC family; Region: AsnC_trans_reg; pfam01037 416344000638 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 416344000639 active site 416344000640 substrate binding site [chemical binding]; other site 416344000641 catalytic site [active] 416344000642 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 416344000643 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 416344000644 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 416344000645 Predicted methyltransferases [General function prediction only]; Region: COG0313 416344000646 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 416344000647 putative SAM binding site [chemical binding]; other site 416344000648 putative homodimer interface [polypeptide binding]; other site 416344000649 hypothetical protein; Provisional; Region: PRK14673 416344000650 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 416344000651 active site 416344000652 dimer interface [polypeptide binding]; other site 416344000653 outer membrane lipoprotein; Provisional; Region: PRK11023 416344000654 BON domain; Region: BON; pfam04972 416344000655 bacterial OsmY and nodulation domain; Region: BON; smart00749 416344000656 Cytochrome c; Region: Cytochrom_C; cl11414 416344000657 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 416344000658 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 416344000659 metal binding site [ion binding]; metal-binding site 416344000660 substrate binding pocket [chemical binding]; other site 416344000661 D-galactonate transporter; Region: 2A0114; TIGR00893 416344000662 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 416344000663 putative substrate translocation pore; other site 416344000664 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 416344000665 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 416344000666 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 416344000667 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416344000668 FtsX-like permease family; Region: FtsX; pfam02687 416344000669 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416344000670 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416344000671 Walker A/P-loop; other site 416344000672 ATP binding site [chemical binding]; other site 416344000673 Q-loop/lid; other site 416344000674 ABC transporter signature motif; other site 416344000675 Walker B; other site 416344000676 D-loop; other site 416344000677 H-loop/switch region; other site 416344000678 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344000679 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 416344000680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344000681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344000682 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 416344000683 dimerization interface [polypeptide binding]; other site 416344000684 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 416344000685 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 416344000686 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 416344000687 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 416344000688 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 416344000689 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 416344000690 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344000691 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 416344000692 substrate binding site [chemical binding]; other site 416344000693 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344000694 active site 416344000695 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 416344000696 Malic enzyme, N-terminal domain; Region: malic; pfam00390 416344000697 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 416344000698 putative NAD(P) binding site [chemical binding]; other site 416344000699 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 416344000700 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 416344000701 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 416344000702 dimer interface [polypeptide binding]; other site 416344000703 PYR/PP interface [polypeptide binding]; other site 416344000704 TPP binding site [chemical binding]; other site 416344000705 substrate binding site [chemical binding]; other site 416344000706 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 416344000707 TPP-binding site; other site 416344000708 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 416344000709 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 416344000710 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 416344000711 dimer interface [polypeptide binding]; other site 416344000712 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 416344000713 active site 416344000714 Fe binding site [ion binding]; other site 416344000715 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344000716 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 416344000717 putative DNA binding site [nucleotide binding]; other site 416344000718 putative Zn2+ binding site [ion binding]; other site 416344000719 AsnC family; Region: AsnC_trans_reg; pfam01037 416344000720 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416344000721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344000722 Coenzyme A binding pocket [chemical binding]; other site 416344000723 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344000724 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344000725 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 416344000726 Protein of unknown function; Region: DUF3658; pfam12395 416344000727 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 416344000728 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 416344000729 FAD binding pocket [chemical binding]; other site 416344000730 FAD binding motif [chemical binding]; other site 416344000731 phosphate binding motif [ion binding]; other site 416344000732 beta-alpha-beta structure motif; other site 416344000733 NAD(p) ribose binding residues [chemical binding]; other site 416344000734 NAD binding pocket [chemical binding]; other site 416344000735 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 416344000736 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 416344000737 catalytic loop [active] 416344000738 iron binding site [ion binding]; other site 416344000739 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 416344000740 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 416344000741 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 416344000742 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 416344000743 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 416344000744 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 416344000745 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 416344000746 active site 416344000747 catalytic triad [active] 416344000748 oxyanion hole [active] 416344000749 elongation factor Tu; Reviewed; Region: PRK00049 416344000750 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 416344000751 G1 box; other site 416344000752 GEF interaction site [polypeptide binding]; other site 416344000753 GTP/Mg2+ binding site [chemical binding]; other site 416344000754 Switch I region; other site 416344000755 G2 box; other site 416344000756 G3 box; other site 416344000757 Switch II region; other site 416344000758 G4 box; other site 416344000759 G5 box; other site 416344000760 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 416344000761 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 416344000762 Antibiotic Binding Site [chemical binding]; other site 416344000763 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 416344000764 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 416344000765 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 416344000766 putative homodimer interface [polypeptide binding]; other site 416344000767 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 416344000768 heterodimer interface [polypeptide binding]; other site 416344000769 homodimer interface [polypeptide binding]; other site 416344000770 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 416344000771 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 416344000772 23S rRNA interface [nucleotide binding]; other site 416344000773 L7/L12 interface [polypeptide binding]; other site 416344000774 putative thiostrepton binding site; other site 416344000775 L25 interface [polypeptide binding]; other site 416344000776 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 416344000777 mRNA/rRNA interface [nucleotide binding]; other site 416344000778 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 416344000779 23S rRNA interface [nucleotide binding]; other site 416344000780 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 416344000781 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 416344000782 peripheral dimer interface [polypeptide binding]; other site 416344000783 core dimer interface [polypeptide binding]; other site 416344000784 L10 interface [polypeptide binding]; other site 416344000785 L11 interface [polypeptide binding]; other site 416344000786 putative EF-Tu interaction site [polypeptide binding]; other site 416344000787 putative EF-G interaction site [polypeptide binding]; other site 416344000788 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 416344000789 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 416344000790 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 416344000791 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 416344000792 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 416344000793 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 416344000794 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 416344000795 RPB3 interaction site [polypeptide binding]; other site 416344000796 RPB1 interaction site [polypeptide binding]; other site 416344000797 RPB11 interaction site [polypeptide binding]; other site 416344000798 RPB10 interaction site [polypeptide binding]; other site 416344000799 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 416344000800 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 416344000801 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 416344000802 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 416344000803 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 416344000804 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 416344000805 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 416344000806 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 416344000807 DNA binding site [nucleotide binding] 416344000808 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 416344000809 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 416344000810 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 416344000811 ATP binding site [chemical binding]; other site 416344000812 putative Mg++ binding site [ion binding]; other site 416344000813 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 416344000814 nucleotide binding region [chemical binding]; other site 416344000815 ATP-binding site [chemical binding]; other site 416344000816 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 416344000817 HRDC domain; Region: HRDC; pfam00570 416344000818 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 416344000819 S17 interaction site [polypeptide binding]; other site 416344000820 S8 interaction site; other site 416344000821 16S rRNA interaction site [nucleotide binding]; other site 416344000822 streptomycin interaction site [chemical binding]; other site 416344000823 23S rRNA interaction site [nucleotide binding]; other site 416344000824 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 416344000825 30S ribosomal protein S7; Validated; Region: PRK05302 416344000826 elongation factor G; Reviewed; Region: PRK00007 416344000827 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 416344000828 G1 box; other site 416344000829 putative GEF interaction site [polypeptide binding]; other site 416344000830 GTP/Mg2+ binding site [chemical binding]; other site 416344000831 Switch I region; other site 416344000832 G2 box; other site 416344000833 G3 box; other site 416344000834 Switch II region; other site 416344000835 G4 box; other site 416344000836 G5 box; other site 416344000837 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 416344000838 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 416344000839 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 416344000840 elongation factor Tu; Reviewed; Region: PRK00049 416344000841 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 416344000842 G1 box; other site 416344000843 GEF interaction site [polypeptide binding]; other site 416344000844 GTP/Mg2+ binding site [chemical binding]; other site 416344000845 Switch I region; other site 416344000846 G2 box; other site 416344000847 G3 box; other site 416344000848 Switch II region; other site 416344000849 G4 box; other site 416344000850 G5 box; other site 416344000851 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 416344000852 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 416344000853 Antibiotic Binding Site [chemical binding]; other site 416344000854 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 416344000855 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 416344000856 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 416344000857 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 416344000858 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 416344000859 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 416344000860 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 416344000861 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 416344000862 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 416344000863 putative translocon binding site; other site 416344000864 protein-rRNA interface [nucleotide binding]; other site 416344000865 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 416344000866 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 416344000867 G-X-X-G motif; other site 416344000868 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 416344000869 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 416344000870 23S rRNA interface [nucleotide binding]; other site 416344000871 5S rRNA interface [nucleotide binding]; other site 416344000872 putative antibiotic binding site [chemical binding]; other site 416344000873 L25 interface [polypeptide binding]; other site 416344000874 L27 interface [polypeptide binding]; other site 416344000875 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 416344000876 23S rRNA interface [nucleotide binding]; other site 416344000877 putative translocon interaction site; other site 416344000878 signal recognition particle (SRP54) interaction site; other site 416344000879 L23 interface [polypeptide binding]; other site 416344000880 trigger factor interaction site; other site 416344000881 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 416344000882 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 416344000883 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 416344000884 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 416344000885 RNA binding site [nucleotide binding]; other site 416344000886 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 416344000887 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 416344000888 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 416344000889 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 416344000890 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 416344000891 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 416344000892 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 416344000893 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 416344000894 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 416344000895 5S rRNA interface [nucleotide binding]; other site 416344000896 L27 interface [polypeptide binding]; other site 416344000897 23S rRNA interface [nucleotide binding]; other site 416344000898 L5 interface [polypeptide binding]; other site 416344000899 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 416344000900 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 416344000901 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 416344000902 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 416344000903 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 416344000904 SecY translocase; Region: SecY; pfam00344 416344000905 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 416344000906 rRNA binding site [nucleotide binding]; other site 416344000907 predicted 30S ribosome binding site; other site 416344000908 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 416344000909 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 416344000910 30S ribosomal protein S13; Region: bact_S13; TIGR03631 416344000911 30S ribosomal protein S11; Validated; Region: PRK05309 416344000912 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 416344000913 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 416344000914 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 416344000915 RNA binding surface [nucleotide binding]; other site 416344000916 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 416344000917 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 416344000918 alphaNTD homodimer interface [polypeptide binding]; other site 416344000919 alphaNTD - beta interaction site [polypeptide binding]; other site 416344000920 alphaNTD - beta' interaction site [polypeptide binding]; other site 416344000921 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 416344000922 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 416344000923 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 416344000924 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 416344000925 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 416344000926 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 416344000927 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 416344000928 DsbD alpha interface [polypeptide binding]; other site 416344000929 catalytic residues [active] 416344000930 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 416344000931 dimer interface [polypeptide binding]; other site 416344000932 active site 416344000933 aspartate-rich active site metal binding site; other site 416344000934 allosteric magnesium binding site [ion binding]; other site 416344000935 Schiff base residues; other site 416344000936 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 416344000937 G1 box; other site 416344000938 GTP/Mg2+ binding site [chemical binding]; other site 416344000939 Switch I region; other site 416344000940 G2 box; other site 416344000941 G3 box; other site 416344000942 Switch II region; other site 416344000943 G4 box; other site 416344000944 G5 box; other site 416344000945 Cytochrome c553 [Energy production and conversion]; Region: COG2863 416344000946 Cytochrome c; Region: Cytochrom_C; cl11414 416344000947 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 416344000948 ResB-like family; Region: ResB; pfam05140 416344000949 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 416344000950 ResB-like family; Region: ResB; pfam05140 416344000951 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 416344000952 TMAO/DMSO reductase; Reviewed; Region: PRK05363 416344000953 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 416344000954 Moco binding site; other site 416344000955 metal coordination site [ion binding]; other site 416344000956 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 416344000957 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 416344000958 frataxin-like protein; Provisional; Region: cyaY; PRK00446 416344000959 putative iron binding site [ion binding]; other site 416344000960 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 416344000961 Transglycosylase; Region: Transgly; pfam00912 416344000962 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 416344000963 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 416344000964 Secretin and TonB N terminus short domain; Region: STN; pfam07660 416344000965 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 416344000966 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 416344000967 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 416344000968 Shikimate kinase; Region: SKI; pfam01202 416344000969 magnesium binding site [ion binding]; other site 416344000970 putative shikimate binding site; other site 416344000971 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 416344000972 active site 416344000973 dimer interface [polypeptide binding]; other site 416344000974 metal binding site [ion binding]; metal-binding site 416344000975 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 416344000976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416344000977 Zn2+ binding site [ion binding]; other site 416344000978 Mg2+ binding site [ion binding]; other site 416344000979 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 416344000980 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 416344000981 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 416344000982 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416344000983 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 416344000984 dimer interface [polypeptide binding]; other site 416344000985 conserved gate region; other site 416344000986 putative PBP binding loops; other site 416344000987 ABC-ATPase subunit interface; other site 416344000988 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 416344000989 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 416344000990 Walker A/P-loop; other site 416344000991 ATP binding site [chemical binding]; other site 416344000992 Q-loop/lid; other site 416344000993 ABC transporter signature motif; other site 416344000994 Walker B; other site 416344000995 D-loop; other site 416344000996 H-loop/switch region; other site 416344000997 TOBE domain; Region: TOBE_2; pfam08402 416344000998 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 416344000999 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 416344001000 putative active site [active] 416344001001 catalytic site [active] 416344001002 putative metal binding site [ion binding]; other site 416344001003 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 416344001004 Transposase IS200 like; Region: Y1_Tnp; cl00848 416344001005 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 416344001006 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 416344001007 active site 416344001008 dimer interface [polypeptide binding]; other site 416344001009 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 416344001010 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 416344001011 active site 416344001012 FMN binding site [chemical binding]; other site 416344001013 substrate binding site [chemical binding]; other site 416344001014 3Fe-4S cluster binding site [ion binding]; other site 416344001015 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 416344001016 domain interface; other site 416344001017 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 416344001018 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344001019 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 416344001020 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 416344001021 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 416344001022 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 416344001023 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 416344001024 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 416344001025 thiS-thiF/thiG interaction site; other site 416344001026 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 416344001027 ThiS interaction site; other site 416344001028 putative active site [active] 416344001029 tetramer interface [polypeptide binding]; other site 416344001030 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 416344001031 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 416344001032 Walker A/P-loop; other site 416344001033 ATP binding site [chemical binding]; other site 416344001034 Q-loop/lid; other site 416344001035 ABC transporter signature motif; other site 416344001036 Walker B; other site 416344001037 D-loop; other site 416344001038 H-loop/switch region; other site 416344001039 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 416344001040 Permease; Region: Permease; pfam02405 416344001041 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 416344001042 mce related protein; Region: MCE; pfam02470 416344001043 VacJ like lipoprotein; Region: VacJ; cl01073 416344001044 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 416344001045 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 416344001046 anti sigma factor interaction site; other site 416344001047 regulatory phosphorylation site [posttranslational modification]; other site 416344001048 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 416344001049 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416344001050 Walker A/P-loop; other site 416344001051 ATP binding site [chemical binding]; other site 416344001052 Q-loop/lid; other site 416344001053 ABC transporter signature motif; other site 416344001054 Walker B; other site 416344001055 D-loop; other site 416344001056 H-loop/switch region; other site 416344001057 ABC-2 type transporter; Region: ABC2_membrane; cl17235 416344001058 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416344001059 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 416344001060 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 416344001061 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 416344001062 hinge; other site 416344001063 active site 416344001064 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 416344001065 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 416344001066 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 416344001067 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 416344001068 NAD binding site [chemical binding]; other site 416344001069 dimerization interface [polypeptide binding]; other site 416344001070 product binding site; other site 416344001071 substrate binding site [chemical binding]; other site 416344001072 zinc binding site [ion binding]; other site 416344001073 catalytic residues [active] 416344001074 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 416344001075 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 416344001076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344001077 homodimer interface [polypeptide binding]; other site 416344001078 catalytic residue [active] 416344001079 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 416344001080 putative active site pocket [active] 416344001081 4-fold oligomerization interface [polypeptide binding]; other site 416344001082 metal binding residues [ion binding]; metal-binding site 416344001083 3-fold/trimer interface [polypeptide binding]; other site 416344001084 MarC family integral membrane protein; Region: MarC; cl00919 416344001085 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 416344001086 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 416344001087 putative active site [active] 416344001088 oxyanion strand; other site 416344001089 catalytic triad [active] 416344001090 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 416344001091 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 416344001092 catalytic residues [active] 416344001093 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 416344001094 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 416344001095 metal binding site [ion binding]; metal-binding site 416344001096 Predicted membrane protein [Function unknown]; Region: COG3671 416344001097 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 416344001098 nucleotide binding site/active site [active] 416344001099 HIT family signature motif; other site 416344001100 catalytic residue [active] 416344001101 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 416344001102 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 416344001103 sec-independent translocase; Provisional; Region: tatB; PRK01919 416344001104 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 416344001105 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 416344001106 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 416344001107 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 416344001108 protein binding site [polypeptide binding]; other site 416344001109 Uncharacterized conserved protein [Function unknown]; Region: COG0327 416344001110 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 416344001111 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 416344001112 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 416344001113 [2Fe-2S] cluster binding site [ion binding]; other site 416344001114 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 416344001115 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 416344001116 Qi binding site; other site 416344001117 intrachain domain interface; other site 416344001118 interchain domain interface [polypeptide binding]; other site 416344001119 heme bH binding site [chemical binding]; other site 416344001120 heme bL binding site [chemical binding]; other site 416344001121 Qo binding site; other site 416344001122 interchain domain interface [polypeptide binding]; other site 416344001123 intrachain domain interface; other site 416344001124 Qi binding site; other site 416344001125 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 416344001126 Qo binding site; other site 416344001127 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 416344001128 stringent starvation protein A; Provisional; Region: sspA; PRK09481 416344001129 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 416344001130 C-terminal domain interface [polypeptide binding]; other site 416344001131 putative GSH binding site (G-site) [chemical binding]; other site 416344001132 dimer interface [polypeptide binding]; other site 416344001133 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 416344001134 dimer interface [polypeptide binding]; other site 416344001135 N-terminal domain interface [polypeptide binding]; other site 416344001136 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 416344001137 integrase; Provisional; Region: PRK09692 416344001138 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 416344001139 active site 416344001140 Int/Topo IB signature motif; other site 416344001141 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 416344001142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 416344001143 Domain of unknown function (DUF927); Region: DUF927; pfam06048 416344001144 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 416344001145 DNA-binding interface [nucleotide binding]; DNA binding site 416344001146 Winged helix-turn helix; Region: HTH_29; pfam13551 416344001147 putative transposase OrfB; Reviewed; Region: PHA02517 416344001148 HTH-like domain; Region: HTH_21; pfam13276 416344001149 Integrase core domain; Region: rve; pfam00665 416344001150 Integrase core domain; Region: rve_3; pfam13683 416344001151 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 416344001152 multiple promoter invertase; Provisional; Region: mpi; PRK13413 416344001153 catalytic residues [active] 416344001154 catalytic nucleophile [active] 416344001155 Presynaptic Site I dimer interface [polypeptide binding]; other site 416344001156 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 416344001157 Synaptic Flat tetramer interface [polypeptide binding]; other site 416344001158 Synaptic Site I dimer interface [polypeptide binding]; other site 416344001159 DNA binding site [nucleotide binding] 416344001160 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 416344001161 DNA-binding interface [nucleotide binding]; DNA binding site 416344001162 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344001163 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 416344001164 substrate binding pocket [chemical binding]; other site 416344001165 membrane-bound complex binding site; other site 416344001166 hinge residues; other site 416344001167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 416344001168 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344001169 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 416344001170 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344001171 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344001172 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 416344001173 RHS Repeat; Region: RHS_repeat; pfam05593 416344001174 RHS Repeat; Region: RHS_repeat; pfam05593 416344001175 RHS Repeat; Region: RHS_repeat; pfam05593 416344001176 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 416344001177 RHS Repeat; Region: RHS_repeat; pfam05593 416344001178 RHS Repeat; Region: RHS_repeat; pfam05593 416344001179 RHS Repeat; Region: RHS_repeat; pfam05593 416344001180 RHS Repeat; Region: RHS_repeat; pfam05593 416344001181 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 416344001182 RHS protein; Region: RHS; pfam03527 416344001183 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 416344001184 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416344001185 MULE transposase domain; Region: MULE; pfam10551 416344001186 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 416344001187 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 416344001188 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 416344001189 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 416344001190 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 416344001191 TPR motif; other site 416344001192 binding surface 416344001193 Protein of unknown function (DUF770); Region: DUF770; pfam05591 416344001194 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 416344001195 Protein of unknown function (DUF877); Region: DUF877; pfam05943 416344001196 Protein of unknown function (DUF796); Region: DUF796; pfam05638 416344001197 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 416344001198 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 416344001199 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 416344001200 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 416344001201 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 416344001202 Clp amino terminal domain; Region: Clp_N; pfam02861 416344001203 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 416344001204 Walker A motif; other site 416344001205 ATP binding site [chemical binding]; other site 416344001206 Walker B motif; other site 416344001207 arginine finger; other site 416344001208 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 416344001209 Walker A motif; other site 416344001210 ATP binding site [chemical binding]; other site 416344001211 Walker B motif; other site 416344001212 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 416344001213 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 416344001214 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 416344001215 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 416344001216 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344001217 ligand binding site [chemical binding]; other site 416344001218 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 416344001219 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 416344001220 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 416344001221 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 416344001222 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 416344001223 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 416344001224 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 416344001225 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 416344001226 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 416344001227 Cl binding site [ion binding]; other site 416344001228 oligomer interface [polypeptide binding]; other site 416344001229 Peptidase family M1; Region: Peptidase_M1; pfam01433 416344001230 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 416344001231 Zn binding site [ion binding]; other site 416344001232 Water Stress and Hypersensitive response; Region: WHy; smart00769 416344001233 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 416344001234 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 416344001235 Methyltransferase domain; Region: Methyltransf_32; pfam13679 416344001236 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 416344001237 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344001238 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 416344001239 putative substrate translocation pore; other site 416344001240 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344001241 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 416344001242 putative FMN binding site [chemical binding]; other site 416344001243 putative chaperone; Provisional; Region: PRK11678 416344001244 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 416344001245 nucleotide binding site [chemical binding]; other site 416344001246 putative NEF/HSP70 interaction site [polypeptide binding]; other site 416344001247 SBD interface [polypeptide binding]; other site 416344001248 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 416344001249 DNA-binding site [nucleotide binding]; DNA binding site 416344001250 RNA-binding motif; other site 416344001251 amino acid transporter; Region: 2A0306; TIGR00909 416344001252 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 416344001253 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 416344001254 putative active site [active] 416344001255 metal binding site [ion binding]; metal-binding site 416344001256 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 416344001257 Flavoprotein; Region: Flavoprotein; pfam02441 416344001258 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 416344001259 putative GSH binding site [chemical binding]; other site 416344001260 catalytic residues [active] 416344001261 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 416344001262 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 416344001263 S-adenosylmethionine binding site [chemical binding]; other site 416344001264 peptide chain release factor 1; Validated; Region: prfA; PRK00591 416344001265 This domain is found in peptide chain release factors; Region: PCRF; smart00937 416344001266 RF-1 domain; Region: RF-1; pfam00472 416344001267 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 416344001268 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 416344001269 tRNA; other site 416344001270 putative tRNA binding site [nucleotide binding]; other site 416344001271 putative NADP binding site [chemical binding]; other site 416344001272 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 416344001273 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344001274 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 416344001275 active site 416344001276 intermolecular recognition site; other site 416344001277 dimerization interface [polypeptide binding]; other site 416344001278 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 416344001279 DNA binding site [nucleotide binding] 416344001280 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 416344001281 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 416344001282 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 416344001283 active site 416344001284 Isochorismatase family; Region: Isochorismatase; pfam00857 416344001285 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 416344001286 catalytic triad [active] 416344001287 conserved cis-peptide bond; other site 416344001288 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 416344001289 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 416344001290 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 416344001291 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344001292 Walker A/P-loop; other site 416344001293 ATP binding site [chemical binding]; other site 416344001294 Q-loop/lid; other site 416344001295 ABC transporter signature motif; other site 416344001296 Walker B; other site 416344001297 D-loop; other site 416344001298 H-loop/switch region; other site 416344001299 ABC transporter; Region: ABC_tran_2; pfam12848 416344001300 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416344001301 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 416344001302 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 416344001303 Predicted ATPase [General function prediction only]; Region: COG4637 416344001304 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344001305 Walker A/P-loop; other site 416344001306 ATP binding site [chemical binding]; other site 416344001307 GTP-binding protein YchF; Reviewed; Region: PRK09601 416344001308 YchF GTPase; Region: YchF; cd01900 416344001309 G1 box; other site 416344001310 GTP/Mg2+ binding site [chemical binding]; other site 416344001311 Switch I region; other site 416344001312 G2 box; other site 416344001313 Switch II region; other site 416344001314 G3 box; other site 416344001315 G4 box; other site 416344001316 G5 box; other site 416344001317 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 416344001318 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 416344001319 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 416344001320 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 416344001321 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 416344001322 dimerization domain [polypeptide binding]; other site 416344001323 dimer interface [polypeptide binding]; other site 416344001324 catalytic residues [active] 416344001325 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 416344001326 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 416344001327 PDZ domain; Region: PDZ_2; pfam13180 416344001328 protein binding site [polypeptide binding]; other site 416344001329 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 416344001330 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344001331 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 416344001332 ligand binding site [chemical binding]; other site 416344001333 active site 416344001334 UGI interface [polypeptide binding]; other site 416344001335 catalytic site [active] 416344001336 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 416344001337 putative active site [active] 416344001338 putative metal binding residues [ion binding]; other site 416344001339 signature motif; other site 416344001340 putative triphosphate binding site [ion binding]; other site 416344001341 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 416344001342 active site 416344001343 ribulose/triose binding site [chemical binding]; other site 416344001344 phosphate binding site [ion binding]; other site 416344001345 substrate (anthranilate) binding pocket [chemical binding]; other site 416344001346 product (indole) binding pocket [chemical binding]; other site 416344001347 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 416344001348 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 416344001349 glutamine binding [chemical binding]; other site 416344001350 catalytic triad [active] 416344001351 anthranilate synthase component I; Provisional; Region: PRK13565 416344001352 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 416344001353 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 416344001354 phosphoglycolate phosphatase; Provisional; Region: PRK13222 416344001355 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 416344001356 motif II; other site 416344001357 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 416344001358 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 416344001359 substrate binding site [chemical binding]; other site 416344001360 hexamer interface [polypeptide binding]; other site 416344001361 metal binding site [ion binding]; metal-binding site 416344001362 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 416344001363 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 416344001364 MltA specific insert domain; Region: MltA; smart00925 416344001365 3D domain; Region: 3D; pfam06725 416344001366 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 416344001367 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 416344001368 active site 416344001369 AMP binding site [chemical binding]; other site 416344001370 homodimer interface [polypeptide binding]; other site 416344001371 acyl-activating enzyme (AAE) consensus motif; other site 416344001372 CoA binding site [chemical binding]; other site 416344001373 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 416344001374 CoenzymeA binding site [chemical binding]; other site 416344001375 subunit interaction site [polypeptide binding]; other site 416344001376 PHB binding site; other site 416344001377 enoyl-CoA hydratase; Provisional; Region: PRK08140 416344001378 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 416344001379 substrate binding site [chemical binding]; other site 416344001380 oxyanion hole (OAH) forming residues; other site 416344001381 trimer interface [polypeptide binding]; other site 416344001382 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 416344001383 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 416344001384 dimer interface [polypeptide binding]; other site 416344001385 active site 416344001386 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 416344001387 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 416344001388 NAD(P) binding site [chemical binding]; other site 416344001389 catalytic residues [active] 416344001390 enoyl-CoA hydratase; Provisional; Region: PRK05862 416344001391 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 416344001392 substrate binding site [chemical binding]; other site 416344001393 oxyanion hole (OAH) forming residues; other site 416344001394 trimer interface [polypeptide binding]; other site 416344001395 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 416344001396 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 416344001397 putative molybdopterin cofactor binding site [chemical binding]; other site 416344001398 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 416344001399 putative molybdopterin cofactor binding site; other site 416344001400 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 416344001401 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 416344001402 acyl-activating enzyme (AAE) consensus motif; other site 416344001403 putative AMP binding site [chemical binding]; other site 416344001404 putative active site [active] 416344001405 putative CoA binding site [chemical binding]; other site 416344001406 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344001407 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 416344001408 trimer interface [polypeptide binding]; other site 416344001409 eyelet of channel; other site 416344001410 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 416344001411 diiron binding motif [ion binding]; other site 416344001412 cell division protein MraZ; Reviewed; Region: PRK00326 416344001413 MraZ protein; Region: MraZ; pfam02381 416344001414 MraZ protein; Region: MraZ; pfam02381 416344001415 MraW methylase family; Region: Methyltransf_5; cl17771 416344001416 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 416344001417 Cell division protein FtsL; Region: FtsL; cl11433 416344001418 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 416344001419 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416344001420 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 416344001421 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 416344001422 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416344001423 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416344001424 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 416344001425 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416344001426 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416344001427 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416344001428 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 416344001429 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 416344001430 Mg++ binding site [ion binding]; other site 416344001431 putative catalytic motif [active] 416344001432 putative substrate binding site [chemical binding]; other site 416344001433 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 416344001434 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416344001435 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416344001436 cell division protein FtsW; Region: ftsW; TIGR02614 416344001437 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 416344001438 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 416344001439 active site 416344001440 homodimer interface [polypeptide binding]; other site 416344001441 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 416344001442 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416344001443 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416344001444 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416344001445 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 416344001446 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 416344001447 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416344001448 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 416344001449 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 416344001450 Cell division protein FtsQ; Region: FtsQ; pfam03799 416344001451 cell division protein FtsA; Region: ftsA; TIGR01174 416344001452 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416344001453 nucleotide binding site [chemical binding]; other site 416344001454 Cell division protein FtsA; Region: FtsA; pfam14450 416344001455 cell division protein FtsZ; Validated; Region: PRK09330 416344001456 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 416344001457 nucleotide binding site [chemical binding]; other site 416344001458 SulA interaction site; other site 416344001459 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 416344001460 catalytic triad [active] 416344001461 dimer interface [polypeptide binding]; other site 416344001462 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 416344001463 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 416344001464 Protein of unknown function (DUF721); Region: DUF721; pfam05258 416344001465 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 416344001466 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 416344001467 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 416344001468 SEC-C motif; Region: SEC-C; pfam02810 416344001469 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 416344001470 heterotetramer interface [polypeptide binding]; other site 416344001471 active site pocket [active] 416344001472 cleavage site 416344001473 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 416344001474 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 416344001475 Walker A motif; other site 416344001476 ATP binding site [chemical binding]; other site 416344001477 Walker B motif; other site 416344001478 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 416344001479 active site 416344001480 8-oxo-dGMP binding site [chemical binding]; other site 416344001481 nudix motif; other site 416344001482 metal binding site [ion binding]; metal-binding site 416344001483 Domain of unknown function (DUF329); Region: DUF329; pfam03884 416344001484 hypothetical protein; Provisional; Region: PRK05287 416344001485 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 416344001486 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 416344001487 CoA-binding site [chemical binding]; other site 416344001488 ATP-binding [chemical binding]; other site 416344001489 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 416344001490 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 416344001491 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 416344001492 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 416344001493 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344001494 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344001495 Type II/IV secretion system protein; Region: T2SE; pfam00437 416344001496 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 416344001497 Walker A motif; other site 416344001498 ATP binding site [chemical binding]; other site 416344001499 Walker B motif; other site 416344001500 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 416344001501 Domain of unknown function DUF21; Region: DUF21; pfam01595 416344001502 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 416344001503 Transporter associated domain; Region: CorC_HlyC; smart01091 416344001504 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 416344001505 binding surface 416344001506 GSCFA family; Region: GSCFA; pfam08885 416344001507 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 416344001508 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416344001509 substrate binding pocket [chemical binding]; other site 416344001510 chain length determination region; other site 416344001511 substrate-Mg2+ binding site; other site 416344001512 catalytic residues [active] 416344001513 aspartate-rich region 1; other site 416344001514 active site lid residues [active] 416344001515 aspartate-rich region 2; other site 416344001516 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 416344001517 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 416344001518 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 416344001519 GTPase CgtA; Reviewed; Region: obgE; PRK12298 416344001520 GTP1/OBG; Region: GTP1_OBG; pfam01018 416344001521 Obg GTPase; Region: Obg; cd01898 416344001522 G1 box; other site 416344001523 GTP/Mg2+ binding site [chemical binding]; other site 416344001524 Switch I region; other site 416344001525 G2 box; other site 416344001526 G3 box; other site 416344001527 Switch II region; other site 416344001528 G4 box; other site 416344001529 G5 box; other site 416344001530 gamma-glutamyl kinase; Provisional; Region: PRK05429 416344001531 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 416344001532 nucleotide binding site [chemical binding]; other site 416344001533 homotetrameric interface [polypeptide binding]; other site 416344001534 putative phosphate binding site [ion binding]; other site 416344001535 putative allosteric binding site; other site 416344001536 PUA domain; Region: PUA; pfam01472 416344001537 CNP1-like family; Region: CNP1; pfam08750 416344001538 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 416344001539 nudix motif; other site 416344001540 putative active site [active] 416344001541 putative metal binding site [ion binding]; other site 416344001542 Ap4A binding site [chemical binding]; other site 416344001543 prolyl-tRNA synthetase; Provisional; Region: PRK09194 416344001544 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 416344001545 dimer interface [polypeptide binding]; other site 416344001546 motif 1; other site 416344001547 active site 416344001548 motif 2; other site 416344001549 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 416344001550 putative deacylase active site [active] 416344001551 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 416344001552 active site 416344001553 motif 3; other site 416344001554 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 416344001555 anticodon binding site; other site 416344001556 MarC family integral membrane protein; Region: MarC; cl00919 416344001557 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344001558 active site 416344001559 signal recognition particle protein; Provisional; Region: PRK10867 416344001560 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 416344001561 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 416344001562 P loop; other site 416344001563 GTP binding site [chemical binding]; other site 416344001564 Signal peptide binding domain; Region: SRP_SPB; pfam02978 416344001565 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 416344001566 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 416344001567 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 416344001568 amidase catalytic site [active] 416344001569 Zn binding residues [ion binding]; other site 416344001570 substrate binding site [chemical binding]; other site 416344001571 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 416344001572 ATP cone domain; Region: ATP-cone; pfam03477 416344001573 Class I ribonucleotide reductase; Region: RNR_I; cd01679 416344001574 active site 416344001575 dimer interface [polypeptide binding]; other site 416344001576 catalytic residues [active] 416344001577 effector binding site; other site 416344001578 R2 peptide binding site; other site 416344001579 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 416344001580 dimer interface [polypeptide binding]; other site 416344001581 putative radical transfer pathway; other site 416344001582 diiron center [ion binding]; other site 416344001583 tyrosyl radical; other site 416344001584 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 416344001585 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 416344001586 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416344001587 substrate binding site [chemical binding]; other site 416344001588 ATP binding site [chemical binding]; other site 416344001589 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 416344001590 dimer interface [polypeptide binding]; other site 416344001591 catalytic triad [active] 416344001592 peroxidatic and resolving cysteines [active] 416344001593 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 416344001594 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 416344001595 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 416344001596 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 416344001597 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 416344001598 S-adenosylmethionine binding site [chemical binding]; other site 416344001599 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 416344001600 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416344001601 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416344001602 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 416344001603 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 416344001604 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 416344001605 carboxyltransferase (CT) interaction site; other site 416344001606 biotinylation site [posttranslational modification]; other site 416344001607 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 416344001608 Dehydroquinase class II; Region: DHquinase_II; pfam01220 416344001609 trimer interface [polypeptide binding]; other site 416344001610 active site 416344001611 dimer interface [polypeptide binding]; other site 416344001612 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 416344001613 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344001614 catalytic residues [active] 416344001615 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 416344001616 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416344001617 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416344001618 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416344001619 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 416344001620 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344001621 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 416344001622 RNB domain; Region: RNB; pfam00773 416344001623 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 416344001624 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 416344001625 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 416344001626 shikimate binding site; other site 416344001627 NAD(P) binding site [chemical binding]; other site 416344001628 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 416344001629 Transglycosylase; Region: Transgly; cl17702 416344001630 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 416344001631 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 416344001632 EF-hand domain pair; Region: EF_hand_5; pfam13499 416344001633 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344001634 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 416344001635 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344001636 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 416344001637 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 416344001638 short chain dehydrogenase; Provisional; Region: PRK07063 416344001639 classical (c) SDRs; Region: SDR_c; cd05233 416344001640 NAD(P) binding site [chemical binding]; other site 416344001641 active site 416344001642 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 416344001643 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 416344001644 ligand binding site [chemical binding]; other site 416344001645 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 416344001646 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416344001647 Walker A/P-loop; other site 416344001648 ATP binding site [chemical binding]; other site 416344001649 Q-loop/lid; other site 416344001650 ABC transporter signature motif; other site 416344001651 Walker B; other site 416344001652 D-loop; other site 416344001653 H-loop/switch region; other site 416344001654 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416344001655 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344001656 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 416344001657 TM-ABC transporter signature motif; other site 416344001658 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 416344001659 classical (c) SDRs; Region: SDR_c; cd05233 416344001660 NAD(P) binding site [chemical binding]; other site 416344001661 active site 416344001662 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 416344001663 active site 416344001664 catalytic residues [active] 416344001665 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 416344001666 active site 416344001667 dimer interface [polypeptide binding]; other site 416344001668 Competence-damaged protein; Region: CinA; pfam02464 416344001669 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 416344001670 tetramer interfaces [polypeptide binding]; other site 416344001671 binuclear metal-binding site [ion binding]; other site 416344001672 thiamine monophosphate kinase; Provisional; Region: PRK05731 416344001673 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 416344001674 ATP binding site [chemical binding]; other site 416344001675 dimerization interface [polypeptide binding]; other site 416344001676 malic enzyme; Reviewed; Region: PRK12862 416344001677 Malic enzyme, N-terminal domain; Region: malic; pfam00390 416344001678 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 416344001679 putative NAD(P) binding site [chemical binding]; other site 416344001680 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 416344001681 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 416344001682 active site 416344001683 barstar interaction site; other site 416344001684 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 416344001685 putative RNAase interaction site [polypeptide binding]; other site 416344001686 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 416344001687 RNA methyltransferase, RsmE family; Region: TIGR00046 416344001688 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 416344001689 putative dimer interface [polypeptide binding]; other site 416344001690 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344001691 transketolase; Reviewed; Region: PRK12753 416344001692 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 416344001693 TPP-binding site [chemical binding]; other site 416344001694 dimer interface [polypeptide binding]; other site 416344001695 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 416344001696 PYR/PP interface [polypeptide binding]; other site 416344001697 dimer interface [polypeptide binding]; other site 416344001698 TPP binding site [chemical binding]; other site 416344001699 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416344001700 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 416344001701 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 416344001702 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 416344001703 Transcriptional regulators [Transcription]; Region: FadR; COG2186 416344001704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344001705 DNA-binding site [nucleotide binding]; DNA binding site 416344001706 FCD domain; Region: FCD; pfam07729 416344001707 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 416344001708 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 416344001709 allantoicase; Provisional; Region: PRK13257 416344001710 Allantoicase repeat; Region: Allantoicase; pfam03561 416344001711 Allantoicase repeat; Region: Allantoicase; pfam03561 416344001712 ureidoglycolate hydrolase; Provisional; Region: PRK13395 416344001713 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 416344001714 ferric uptake regulator; Provisional; Region: fur; PRK09462 416344001715 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 416344001716 metal binding site 2 [ion binding]; metal-binding site 416344001717 putative DNA binding helix; other site 416344001718 metal binding site 1 [ion binding]; metal-binding site 416344001719 dimer interface [polypeptide binding]; other site 416344001720 structural Zn2+ binding site [ion binding]; other site 416344001721 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 416344001722 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 416344001723 dihydrodipicolinate reductase; Provisional; Region: PRK00048 416344001724 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 416344001725 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 416344001726 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 416344001727 TolR protein; Region: tolR; TIGR02801 416344001728 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 416344001729 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 416344001730 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 416344001731 HIGH motif; other site 416344001732 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416344001733 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416344001734 active site 416344001735 KMSKS motif; other site 416344001736 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 416344001737 tRNA binding surface [nucleotide binding]; other site 416344001738 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 416344001739 Lipopolysaccharide-assembly; Region: LptE; pfam04390 416344001740 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 416344001741 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 416344001742 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 416344001743 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 416344001744 putative catalytic cysteine [active] 416344001745 Predicted membrane protein [Function unknown]; Region: COG1981 416344001746 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416344001747 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416344001748 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 416344001749 putative active site [active] 416344001750 phosphogluconate dehydratase; Validated; Region: PRK09054 416344001751 6-phosphogluconate dehydratase; Region: edd; TIGR01196 416344001752 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 416344001753 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 416344001754 active site 416344001755 intersubunit interface [polypeptide binding]; other site 416344001756 catalytic residue [active] 416344001757 fructuronate transporter; Provisional; Region: PRK10034; cl15264 416344001758 GntP family permease; Region: GntP_permease; pfam02447 416344001759 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 416344001760 ATP-binding site [chemical binding]; other site 416344001761 Gluconate-6-phosphate binding site [chemical binding]; other site 416344001762 Shikimate kinase; Region: SKI; pfam01202 416344001763 adenylosuccinate lyase; Provisional; Region: PRK09285 416344001764 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 416344001765 tetramer interface [polypeptide binding]; other site 416344001766 active site 416344001767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344001768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344001769 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 416344001770 dimerization interface [polypeptide binding]; other site 416344001771 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 416344001772 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 416344001773 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 416344001774 NAD(P) binding site [chemical binding]; other site 416344001775 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 416344001776 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 416344001777 substrate binding pocket [chemical binding]; other site 416344001778 membrane-bound complex binding site; other site 416344001779 hinge residues; other site 416344001780 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416344001781 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 416344001782 dimer interface [polypeptide binding]; other site 416344001783 conserved gate region; other site 416344001784 putative PBP binding loops; other site 416344001785 ABC-ATPase subunit interface; other site 416344001786 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416344001787 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 416344001788 dimer interface [polypeptide binding]; other site 416344001789 conserved gate region; other site 416344001790 putative PBP binding loops; other site 416344001791 ABC-ATPase subunit interface; other site 416344001792 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416344001793 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 416344001794 Walker A/P-loop; other site 416344001795 ATP binding site [chemical binding]; other site 416344001796 Q-loop/lid; other site 416344001797 ABC transporter signature motif; other site 416344001798 Walker B; other site 416344001799 D-loop; other site 416344001800 H-loop/switch region; other site 416344001801 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 416344001802 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 416344001803 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 416344001804 Autotransporter beta-domain; Region: Autotransporter; smart00869 416344001805 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 416344001806 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 416344001807 putative dimer interface [polypeptide binding]; other site 416344001808 putative active site [active] 416344001809 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 416344001810 active site 416344001811 substrate binding pocket [chemical binding]; other site 416344001812 dimer interface [polypeptide binding]; other site 416344001813 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 416344001814 OsmC-like protein; Region: OsmC; cl00767 416344001815 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 416344001816 23S rRNA interface [nucleotide binding]; other site 416344001817 L3 interface [polypeptide binding]; other site 416344001818 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 416344001819 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 416344001820 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 416344001821 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 416344001822 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 416344001823 active site 416344001824 HIGH motif; other site 416344001825 dimer interface [polypeptide binding]; other site 416344001826 KMSKS motif; other site 416344001827 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 416344001828 RNA binding surface [nucleotide binding]; other site 416344001829 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 416344001830 putative active site [active] 416344001831 dimerization interface [polypeptide binding]; other site 416344001832 putative tRNAtyr binding site [nucleotide binding]; other site 416344001833 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 416344001834 catalytic core [active] 416344001835 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 416344001836 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 416344001837 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 416344001838 Walker A motif; other site 416344001839 ATP binding site [chemical binding]; other site 416344001840 Walker B motif; other site 416344001841 arginine finger; other site 416344001842 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 416344001843 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 416344001844 RuvA N terminal domain; Region: RuvA_N; pfam01330 416344001845 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 416344001846 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 416344001847 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 416344001848 active site 416344001849 putative DNA-binding cleft [nucleotide binding]; other site 416344001850 dimer interface [polypeptide binding]; other site 416344001851 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 416344001852 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 416344001853 purine monophosphate binding site [chemical binding]; other site 416344001854 dimer interface [polypeptide binding]; other site 416344001855 putative catalytic residues [active] 416344001856 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 416344001857 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 416344001858 DNA-binding protein Fis; Provisional; Region: PRK01905 416344001859 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 416344001860 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 416344001861 FMN binding site [chemical binding]; other site 416344001862 active site 416344001863 catalytic residues [active] 416344001864 substrate binding site [chemical binding]; other site 416344001865 hypothetical protein; Provisional; Region: PRK06996 416344001866 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416344001867 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 416344001868 proline aminopeptidase P II; Provisional; Region: PRK10879 416344001869 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 416344001870 active site 416344001871 putative glutathione S-transferase; Provisional; Region: PRK10357 416344001872 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 416344001873 putative C-terminal domain interface [polypeptide binding]; other site 416344001874 putative GSH binding site (G-site) [chemical binding]; other site 416344001875 putative dimer interface [polypeptide binding]; other site 416344001876 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 416344001877 dimer interface [polypeptide binding]; other site 416344001878 N-terminal domain interface [polypeptide binding]; other site 416344001879 putative substrate binding pocket (H-site) [chemical binding]; other site 416344001880 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 416344001881 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 416344001882 active site 416344001883 FMN binding site [chemical binding]; other site 416344001884 substrate binding site [chemical binding]; other site 416344001885 3Fe-4S cluster binding site [ion binding]; other site 416344001886 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 416344001887 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 416344001888 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 416344001889 nudix motif; other site 416344001890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344001891 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344001892 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 416344001893 dimerization interface [polypeptide binding]; other site 416344001894 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 416344001895 Predicted amidohydrolase [General function prediction only]; Region: COG0388 416344001896 putative active site [active] 416344001897 catalytic triad [active] 416344001898 putative dimer interface [polypeptide binding]; other site 416344001899 Predicted transcriptional regulator [Transcription]; Region: COG2378 416344001900 HTH domain; Region: HTH_11; pfam08279 416344001901 WYL domain; Region: WYL; pfam13280 416344001902 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 416344001903 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344001904 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 416344001905 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 416344001906 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 416344001907 Site-specific recombinase; Region: SpecificRecomb; pfam10136 416344001908 Protein of unknown function (DUF330); Region: DUF330; pfam03886 416344001909 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 416344001910 mce related protein; Region: MCE; pfam02470 416344001911 mce related protein; Region: MCE; pfam02470 416344001912 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 416344001913 Paraquat-inducible protein A; Region: PqiA; pfam04403 416344001914 Paraquat-inducible protein A; Region: PqiA; pfam04403 416344001915 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 416344001916 YceI-like domain; Region: YceI; smart00867 416344001917 Uncharacterized conserved protein [Function unknown]; Region: COG2353 416344001918 citrate-proton symporter; Provisional; Region: PRK15075 416344001919 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 416344001920 putative substrate translocation pore; other site 416344001921 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 416344001922 protein binding site [polypeptide binding]; other site 416344001923 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 416344001924 Active site serine [active] 416344001925 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 416344001926 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 416344001927 Protein export membrane protein; Region: SecD_SecF; pfam02355 416344001928 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 416344001929 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 416344001930 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 416344001931 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 416344001932 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 416344001933 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 416344001934 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 416344001935 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 416344001936 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 416344001937 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 416344001938 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 416344001939 ssDNA binding site; other site 416344001940 generic binding surface II; other site 416344001941 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 416344001942 ATP binding site [chemical binding]; other site 416344001943 putative Mg++ binding site [ion binding]; other site 416344001944 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 416344001945 nucleotide binding region [chemical binding]; other site 416344001946 ATP-binding site [chemical binding]; other site 416344001947 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344001948 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344001949 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 416344001950 dimerization interface [polypeptide binding]; other site 416344001951 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 416344001952 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 416344001953 dimer interface [polypeptide binding]; other site 416344001954 active site 416344001955 heme binding site [chemical binding]; other site 416344001956 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 416344001957 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 416344001958 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 416344001959 dimerization interface [polypeptide binding]; other site 416344001960 DPS ferroxidase diiron center [ion binding]; other site 416344001961 ion pore; other site 416344001962 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 416344001963 UbiA prenyltransferase family; Region: UbiA; pfam01040 416344001964 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 416344001965 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 416344001966 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 416344001967 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416344001968 catalytic residue [active] 416344001969 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 416344001970 FAD binding domain; Region: FAD_binding_4; pfam01565 416344001971 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 416344001972 FAD binding domain; Region: FAD_binding_4; pfam01565 416344001973 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 416344001974 FAD binding domain; Region: FAD_binding_4; pfam01565 416344001975 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 416344001976 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 416344001977 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 416344001978 heme-binding site [chemical binding]; other site 416344001979 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 416344001980 FAD binding pocket [chemical binding]; other site 416344001981 FAD binding motif [chemical binding]; other site 416344001982 phosphate binding motif [ion binding]; other site 416344001983 beta-alpha-beta structure motif; other site 416344001984 NAD binding pocket [chemical binding]; other site 416344001985 Heme binding pocket [chemical binding]; other site 416344001986 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 416344001987 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416344001988 protease TldD; Provisional; Region: tldD; PRK10735 416344001989 nitrilase; Region: PLN02798 416344001990 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 416344001991 putative active site [active] 416344001992 catalytic triad [active] 416344001993 dimer interface [polypeptide binding]; other site 416344001994 TIGR02099 family protein; Region: TIGR02099 416344001995 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 416344001996 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 416344001997 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 416344001998 metal binding triad; other site 416344001999 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 416344002000 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 416344002001 metal binding triad; other site 416344002002 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 416344002003 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 416344002004 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 416344002005 Walker A/P-loop; other site 416344002006 ATP binding site [chemical binding]; other site 416344002007 Q-loop/lid; other site 416344002008 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 416344002009 ABC transporter signature motif; other site 416344002010 Walker B; other site 416344002011 D-loop; other site 416344002012 H-loop/switch region; other site 416344002013 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 416344002014 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 416344002015 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 416344002016 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 416344002017 ferrochelatase; Reviewed; Region: hemH; PRK00035 416344002018 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 416344002019 C-terminal domain interface [polypeptide binding]; other site 416344002020 active site 416344002021 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 416344002022 active site 416344002023 N-terminal domain interface [polypeptide binding]; other site 416344002024 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 416344002025 RNA binding surface [nucleotide binding]; other site 416344002026 GrpE; Region: GrpE; pfam01025 416344002027 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 416344002028 dimer interface [polypeptide binding]; other site 416344002029 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 416344002030 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 416344002031 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 416344002032 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 416344002033 nucleotide binding site [chemical binding]; other site 416344002034 chaperone protein DnaJ; Provisional; Region: PRK10767 416344002035 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 416344002036 HSP70 interaction site [polypeptide binding]; other site 416344002037 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 416344002038 Zn binding sites [ion binding]; other site 416344002039 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 416344002040 dimer interface [polypeptide binding]; other site 416344002041 chorismate binding enzyme; Region: Chorismate_bind; cl10555 416344002042 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 416344002043 chorismate binding enzyme; Region: Chorismate_bind; cl10555 416344002044 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 416344002045 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 416344002046 substrate-cofactor binding pocket; other site 416344002047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344002048 catalytic residue [active] 416344002049 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 416344002050 oligomerization interface [polypeptide binding]; other site 416344002051 active site 416344002052 metal binding site [ion binding]; metal-binding site 416344002053 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 416344002054 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 416344002055 Substrate-binding site [chemical binding]; other site 416344002056 Substrate specificity [chemical binding]; other site 416344002057 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 416344002058 catalytic center binding site [active] 416344002059 ATP binding site [chemical binding]; other site 416344002060 poly(A) polymerase; Region: pcnB; TIGR01942 416344002061 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 416344002062 active site 416344002063 NTP binding site [chemical binding]; other site 416344002064 metal binding triad [ion binding]; metal-binding site 416344002065 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 416344002066 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 416344002067 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 416344002068 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416344002069 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 416344002070 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 416344002071 dimerization interface [polypeptide binding]; other site 416344002072 putative ATP binding site [chemical binding]; other site 416344002073 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 416344002074 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 416344002075 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 416344002076 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 416344002077 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 416344002078 ATP binding site [chemical binding]; other site 416344002079 Mg2+ binding site [ion binding]; other site 416344002080 G-X-G motif; other site 416344002081 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 416344002082 ATP binding site [chemical binding]; other site 416344002083 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 416344002084 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 416344002085 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416344002086 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 416344002087 ligand-binding site [chemical binding]; other site 416344002088 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 416344002089 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 416344002090 putative active site [active] 416344002091 putative dimer interface [polypeptide binding]; other site 416344002092 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 416344002093 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 416344002094 Tetratricopeptide repeat; Region: TPR_6; pfam13174 416344002095 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 416344002096 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344002097 ligand binding site [chemical binding]; other site 416344002098 translocation protein TolB; Provisional; Region: tolB; PRK02889 416344002099 TolB amino-terminal domain; Region: TolB_N; pfam04052 416344002100 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 416344002101 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 416344002102 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 416344002103 TolA protein; Region: tolA_full; TIGR02794 416344002104 TonB C terminal; Region: TonB_2; pfam13103 416344002105 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 416344002106 TolR protein; Region: tolR; TIGR02801 416344002107 TolQ protein; Region: tolQ; TIGR02796 416344002108 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 416344002109 active site 416344002110 malonic semialdehyde reductase; Provisional; Region: PRK10538 416344002111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344002112 NAD(P) binding site [chemical binding]; other site 416344002113 active site 416344002114 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 416344002115 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 416344002116 dimer interface [polypeptide binding]; other site 416344002117 active site 416344002118 glycine-pyridoxal phosphate binding site [chemical binding]; other site 416344002119 folate binding site [chemical binding]; other site 416344002120 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 416344002121 ATP cone domain; Region: ATP-cone; pfam03477 416344002122 Type II transport protein GspH; Region: GspH; pfam12019 416344002123 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 416344002124 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 416344002125 Predicted membrane protein [Function unknown]; Region: COG5393 416344002126 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 416344002127 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 416344002128 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 416344002129 dimer interface [polypeptide binding]; other site 416344002130 decamer (pentamer of dimers) interface [polypeptide binding]; other site 416344002131 catalytic triad [active] 416344002132 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 416344002133 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 416344002134 FAD binding site [chemical binding]; other site 416344002135 substrate binding pocket [chemical binding]; other site 416344002136 catalytic base [active] 416344002137 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344002138 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 416344002139 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344002140 Uncharacterized conserved protein [Function unknown]; Region: COG3791 416344002141 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 416344002142 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 416344002143 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416344002144 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 416344002145 benzoate transport; Region: 2A0115; TIGR00895 416344002146 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 416344002147 putative substrate translocation pore; other site 416344002148 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 416344002149 putative substrate translocation pore; other site 416344002150 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 416344002151 fumarylacetoacetase; Region: PLN02856 416344002152 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 416344002153 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 416344002154 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 416344002155 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344002156 putative substrate translocation pore; other site 416344002157 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 416344002158 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344002159 putative substrate translocation pore; other site 416344002160 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 416344002161 putative FMN binding site [chemical binding]; other site 416344002162 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 416344002163 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 416344002164 putative ligand binding site [chemical binding]; other site 416344002165 putative NAD binding site [chemical binding]; other site 416344002166 catalytic site [active] 416344002167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344002168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344002169 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 416344002170 putative effector binding pocket; other site 416344002171 dimerization interface [polypeptide binding]; other site 416344002172 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 416344002173 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344002174 catalytic residue [active] 416344002175 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344002176 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344002177 EamA-like transporter family; Region: EamA; pfam00892 416344002178 EamA-like transporter family; Region: EamA; pfam00892 416344002179 major facilitator superfamily transporter; Provisional; Region: PRK05122 416344002180 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 416344002181 putative substrate translocation pore; other site 416344002182 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 416344002183 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 416344002184 catalytic loop [active] 416344002185 iron binding site [ion binding]; other site 416344002186 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 416344002187 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 416344002188 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 416344002189 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 416344002190 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344002191 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 416344002192 XdhC Rossmann domain; Region: XdhC_C; pfam13478 416344002193 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 416344002194 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 416344002195 oligomeric interface; other site 416344002196 homodimer interface [polypeptide binding]; other site 416344002197 putative active site [active] 416344002198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 416344002199 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344002200 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344002201 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 416344002202 dimerization interface [polypeptide binding]; other site 416344002203 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 416344002204 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 416344002205 putative catalytic residue [active] 416344002206 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 416344002207 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 416344002208 BON domain; Region: BON; pfam04972 416344002209 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 416344002210 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 416344002211 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 416344002212 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 416344002213 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416344002214 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 416344002215 putative substrate translocation pore; other site 416344002216 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 416344002217 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 416344002218 catalytic residues [active] 416344002219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 416344002220 YheO-like PAS domain; Region: PAS_6; pfam08348 416344002221 HTH domain; Region: HTH_22; pfam13309 416344002222 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 416344002223 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 416344002224 RNA polymerase sigma factor; Provisional; Region: PRK12511 416344002225 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344002226 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 416344002227 DNA binding residues [nucleotide binding] 416344002228 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 416344002229 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 416344002230 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 416344002231 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 416344002232 putative hydrophobic ligand binding site [chemical binding]; other site 416344002233 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 416344002234 oligomerisation interface [polypeptide binding]; other site 416344002235 mobile loop; other site 416344002236 roof hairpin; other site 416344002237 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 416344002238 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 416344002239 ring oligomerisation interface [polypeptide binding]; other site 416344002240 ATP/Mg binding site [chemical binding]; other site 416344002241 stacking interactions; other site 416344002242 hinge regions; other site 416344002243 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 416344002244 ATP binding site [chemical binding]; other site 416344002245 substrate binding site [chemical binding]; other site 416344002246 Rubredoxin [Energy production and conversion]; Region: COG1773 416344002247 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 416344002248 iron binding site [ion binding]; other site 416344002249 hypothetical protein; Validated; Region: PRK00228 416344002250 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 416344002251 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344002252 active site 416344002253 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 416344002254 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416344002255 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 416344002256 dihydroorotase; Provisional; Region: PRK07627 416344002257 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 416344002258 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 416344002259 active site 416344002260 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 416344002261 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 416344002262 putative acyl-acceptor binding pocket; other site 416344002263 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 416344002264 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 416344002265 active site 416344002266 metal binding site [ion binding]; metal-binding site 416344002267 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 416344002268 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 416344002269 NAD binding site [chemical binding]; other site 416344002270 substrate binding site [chemical binding]; other site 416344002271 homodimer interface [polypeptide binding]; other site 416344002272 active site 416344002273 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 416344002274 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 416344002275 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 416344002276 NADP binding site [chemical binding]; other site 416344002277 active site 416344002278 putative substrate binding site [chemical binding]; other site 416344002279 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 416344002280 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 416344002281 Ligand binding site; other site 416344002282 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 416344002283 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 416344002284 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 416344002285 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 416344002286 Walker A/P-loop; other site 416344002287 ATP binding site [chemical binding]; other site 416344002288 Q-loop/lid; other site 416344002289 ABC transporter signature motif; other site 416344002290 Walker B; other site 416344002291 D-loop; other site 416344002292 H-loop/switch region; other site 416344002293 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416344002294 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 416344002295 Probable Catalytic site; other site 416344002296 metal-binding site 416344002297 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 416344002298 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 416344002299 Probable Catalytic site; other site 416344002300 metal-binding site 416344002301 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 416344002302 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 416344002303 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 416344002304 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 416344002305 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 416344002306 active site 416344002307 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344002308 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 416344002309 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 416344002310 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344002311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 416344002312 Methyltransferase domain; Region: Methyltransf_23; pfam13489 416344002313 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344002314 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 416344002315 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 416344002316 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344002317 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 416344002318 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344002319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344002320 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 416344002321 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344002322 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 416344002323 Nodulation protein Z (NodZ); Region: NodZ; pfam05830 416344002324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344002325 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 416344002326 NAD(P) binding site [chemical binding]; other site 416344002327 active site 416344002328 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 416344002329 homotetramer interface [polypeptide binding]; other site 416344002330 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 416344002331 NADP-binding site; other site 416344002332 substrate binding site [chemical binding]; other site 416344002333 homodimer interface [polypeptide binding]; other site 416344002334 active site 416344002335 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 416344002336 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 416344002337 Probable Catalytic site; other site 416344002338 metal-binding site 416344002339 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416344002340 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 416344002341 putative NAD(P) binding site [chemical binding]; other site 416344002342 active site 416344002343 putative substrate binding site [chemical binding]; other site 416344002344 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 416344002345 Mg++ binding site [ion binding]; other site 416344002346 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 416344002347 putative catalytic motif [active] 416344002348 putative substrate binding site [chemical binding]; other site 416344002349 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 416344002350 CoA binding domain; Region: CoA_binding; cl17356 416344002351 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 416344002352 NAD(P) binding site [chemical binding]; other site 416344002353 homodimer interface [polypeptide binding]; other site 416344002354 substrate binding site [chemical binding]; other site 416344002355 active site 416344002356 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 416344002357 peptidase domain interface [polypeptide binding]; other site 416344002358 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 416344002359 active site 416344002360 catalytic triad [active] 416344002361 calcium binding site [ion binding]; other site 416344002362 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 416344002363 dimerization interface [polypeptide binding]; other site 416344002364 D-mannose binding lectin; Region: B_lectin; pfam01453 416344002365 mannose binding site [chemical binding]; other site 416344002366 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 416344002367 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 416344002368 dimerization interface [polypeptide binding]; other site 416344002369 mannose binding site [chemical binding]; other site 416344002370 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 416344002371 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 416344002372 Mg++ binding site [ion binding]; other site 416344002373 putative catalytic motif [active] 416344002374 UDP-glucose 4-epimerase; Region: PLN02240 416344002375 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 416344002376 NAD binding site [chemical binding]; other site 416344002377 homodimer interface [polypeptide binding]; other site 416344002378 active site 416344002379 substrate binding site [chemical binding]; other site 416344002380 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 416344002381 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344002382 putative ADP-binding pocket [chemical binding]; other site 416344002383 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 416344002384 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 416344002385 active site 416344002386 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 416344002387 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 416344002388 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 416344002389 active site 416344002390 substrate binding site [chemical binding]; other site 416344002391 metal binding site [ion binding]; metal-binding site 416344002392 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 416344002393 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 416344002394 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 416344002395 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 416344002396 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 416344002397 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 416344002398 UreF; Region: UreF; pfam01730 416344002399 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 416344002400 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 416344002401 dimer interface [polypeptide binding]; other site 416344002402 catalytic residues [active] 416344002403 urease subunit alpha; Reviewed; Region: ureC; PRK13207 416344002404 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 416344002405 subunit interactions [polypeptide binding]; other site 416344002406 active site 416344002407 flap region; other site 416344002408 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 416344002409 gamma-beta subunit interface [polypeptide binding]; other site 416344002410 alpha-beta subunit interface [polypeptide binding]; other site 416344002411 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 416344002412 alpha-gamma subunit interface [polypeptide binding]; other site 416344002413 beta-gamma subunit interface [polypeptide binding]; other site 416344002414 UreD urease accessory protein; Region: UreD; cl00530 416344002415 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 416344002416 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 416344002417 Walker A/P-loop; other site 416344002418 ATP binding site [chemical binding]; other site 416344002419 Q-loop/lid; other site 416344002420 ABC transporter signature motif; other site 416344002421 Walker B; other site 416344002422 D-loop; other site 416344002423 H-loop/switch region; other site 416344002424 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 416344002425 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 416344002426 Walker A/P-loop; other site 416344002427 ATP binding site [chemical binding]; other site 416344002428 Q-loop/lid; other site 416344002429 ABC transporter signature motif; other site 416344002430 Walker B; other site 416344002431 D-loop; other site 416344002432 H-loop/switch region; other site 416344002433 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 416344002434 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 416344002435 TM-ABC transporter signature motif; other site 416344002436 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 416344002437 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344002438 TM-ABC transporter signature motif; other site 416344002439 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 416344002440 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 416344002441 putative ligand binding site [chemical binding]; other site 416344002442 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 416344002443 active site residue [active] 416344002444 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 416344002445 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 416344002446 S-adenosylmethionine binding site [chemical binding]; other site 416344002447 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 416344002448 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 416344002449 FeS/SAM binding site; other site 416344002450 HemN C-terminal domain; Region: HemN_C; pfam06969 416344002451 Flagellin N-methylase; Region: FliB; pfam03692 416344002452 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 416344002453 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 416344002454 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 416344002455 S-adenosylmethionine binding site [chemical binding]; other site 416344002456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 416344002457 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344002458 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 416344002459 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344002460 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344002461 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 416344002462 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 416344002463 Chromate transporter; Region: Chromate_transp; pfam02417 416344002464 Chromate transporter; Region: Chromate_transp; pfam02417 416344002465 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 416344002466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344002467 DNA-binding site [nucleotide binding]; DNA binding site 416344002468 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416344002469 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 416344002470 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 416344002471 dimer interface [polypeptide binding]; other site 416344002472 ADP-ribose binding site [chemical binding]; other site 416344002473 active site 416344002474 nudix motif; other site 416344002475 metal binding site [ion binding]; metal-binding site 416344002476 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 416344002477 NAD-dependent deacetylase; Provisional; Region: PRK00481 416344002478 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 416344002479 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 416344002480 active site 416344002481 catalytic triad [active] 416344002482 calcium binding site [ion binding]; other site 416344002483 chromosome condensation membrane protein; Provisional; Region: PRK14196 416344002484 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 416344002485 YGGT family; Region: YGGT; pfam02325 416344002486 YGGT family; Region: YGGT; pfam02325 416344002487 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 416344002488 LysE type translocator; Region: LysE; cl00565 416344002489 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 416344002490 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 416344002491 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 416344002492 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416344002493 catalytic residue [active] 416344002494 aminotransferase; Validated; Region: PRK07337 416344002495 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 416344002496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344002497 homodimer interface [polypeptide binding]; other site 416344002498 catalytic residue [active] 416344002499 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 416344002500 putative RNA binding site [nucleotide binding]; other site 416344002501 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 416344002502 homopentamer interface [polypeptide binding]; other site 416344002503 active site 416344002504 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 416344002505 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 416344002506 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 416344002507 dimerization interface [polypeptide binding]; other site 416344002508 active site 416344002509 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 416344002510 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 416344002511 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 416344002512 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 416344002513 catalytic motif [active] 416344002514 Zn binding site [ion binding]; other site 416344002515 RibD C-terminal domain; Region: RibD_C; cl17279 416344002516 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 416344002517 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 416344002518 inhibitor-cofactor binding pocket; inhibition site 416344002519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344002520 catalytic residue [active] 416344002521 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 416344002522 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 416344002523 putative substrate translocation pore; other site 416344002524 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 416344002525 glucokinase; Provisional; Region: glk; PRK00292 416344002526 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416344002527 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 416344002528 putative active site [active] 416344002529 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 416344002530 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 416344002531 putative active site [active] 416344002532 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 416344002533 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 416344002534 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 416344002535 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 416344002536 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416344002537 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 416344002538 dimer interface [polypeptide binding]; other site 416344002539 conserved gate region; other site 416344002540 putative PBP binding loops; other site 416344002541 ABC-ATPase subunit interface; other site 416344002542 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416344002543 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 416344002544 dimer interface [polypeptide binding]; other site 416344002545 conserved gate region; other site 416344002546 putative PBP binding loops; other site 416344002547 ABC-ATPase subunit interface; other site 416344002548 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 416344002549 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 416344002550 Walker A/P-loop; other site 416344002551 ATP binding site [chemical binding]; other site 416344002552 Q-loop/lid; other site 416344002553 ABC transporter signature motif; other site 416344002554 Walker B; other site 416344002555 D-loop; other site 416344002556 H-loop/switch region; other site 416344002557 TOBE domain; Region: TOBE_2; pfam08402 416344002558 Predicted membrane protein [Function unknown]; Region: COG2860 416344002559 UPF0126 domain; Region: UPF0126; pfam03458 416344002560 UPF0126 domain; Region: UPF0126; pfam03458 416344002561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 416344002562 Smr domain; Region: Smr; pfam01713 416344002563 thioredoxin reductase; Provisional; Region: PRK10262 416344002564 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344002565 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344002566 fumarate hydratase; Provisional; Region: PRK15389 416344002567 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 416344002568 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 416344002569 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 416344002570 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 416344002571 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 416344002572 recombination factor protein RarA; Reviewed; Region: PRK13342 416344002573 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 416344002574 Walker A motif; other site 416344002575 ATP binding site [chemical binding]; other site 416344002576 Walker B motif; other site 416344002577 arginine finger; other site 416344002578 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 416344002579 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 416344002580 seryl-tRNA synthetase; Provisional; Region: PRK05431 416344002581 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 416344002582 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 416344002583 dimer interface [polypeptide binding]; other site 416344002584 active site 416344002585 motif 1; other site 416344002586 motif 2; other site 416344002587 motif 3; other site 416344002588 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 416344002589 dimerization interface [polypeptide binding]; other site 416344002590 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344002591 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344002592 dimer interface [polypeptide binding]; other site 416344002593 putative CheW interface [polypeptide binding]; other site 416344002594 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 416344002595 Fatty acid desaturase; Region: FA_desaturase; pfam00487 416344002596 Di-iron ligands [ion binding]; other site 416344002597 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344002598 Coenzyme A binding pocket [chemical binding]; other site 416344002599 septum formation inhibitor; Reviewed; Region: PRK01973 416344002600 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 416344002601 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 416344002602 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 416344002603 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 416344002604 Switch I; other site 416344002605 Switch II; other site 416344002606 cell division topological specificity factor MinE; Provisional; Region: PRK13989 416344002607 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 416344002608 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 416344002609 putative ion selectivity filter; other site 416344002610 putative pore gating glutamate residue; other site 416344002611 putative H+/Cl- coupling transport residue; other site 416344002612 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 416344002613 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416344002614 putative active site [active] 416344002615 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 416344002616 metabolite-proton symporter; Region: 2A0106; TIGR00883 416344002617 putative substrate translocation pore; other site 416344002618 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 416344002619 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 416344002620 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 416344002621 FeS/SAM binding site; other site 416344002622 HemN C-terminal domain; Region: HemN_C; pfam06969 416344002623 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 416344002624 active site 416344002625 dimerization interface [polypeptide binding]; other site 416344002626 ribonuclease PH; Reviewed; Region: rph; PRK00173 416344002627 Ribonuclease PH; Region: RNase_PH_bact; cd11362 416344002628 hexamer interface [polypeptide binding]; other site 416344002629 active site 416344002630 hypothetical protein; Provisional; Region: PRK11820 416344002631 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 416344002632 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 416344002633 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344002634 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 416344002635 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 416344002636 catalytic site [active] 416344002637 Walker A/P-loop; other site 416344002638 G-X2-G-X-G-K; other site 416344002639 ATP binding site [chemical binding]; other site 416344002640 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 416344002641 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 416344002642 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416344002643 Zn2+ binding site [ion binding]; other site 416344002644 Mg2+ binding site [ion binding]; other site 416344002645 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416344002646 synthetase active site [active] 416344002647 NTP binding site [chemical binding]; other site 416344002648 metal binding site [ion binding]; metal-binding site 416344002649 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 416344002650 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 416344002651 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 416344002652 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 416344002653 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 416344002654 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344002655 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 416344002656 trimer interface [polypeptide binding]; other site 416344002657 eyelet of channel; other site 416344002658 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 416344002659 DNA-binding site [nucleotide binding]; DNA binding site 416344002660 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 416344002661 active site 416344002662 catalytic site [active] 416344002663 substrate binding site [chemical binding]; other site 416344002664 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 416344002665 GIY-YIG motif/motif A; other site 416344002666 active site 416344002667 catalytic site [active] 416344002668 putative DNA binding site [nucleotide binding]; other site 416344002669 metal binding site [ion binding]; metal-binding site 416344002670 chorismate mutase; Provisional; Region: PRK09269 416344002671 Chorismate mutase type II; Region: CM_2; cl00693 416344002672 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 416344002673 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 416344002674 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 416344002675 N-terminal plug; other site 416344002676 ligand-binding site [chemical binding]; other site 416344002677 BNR repeat-like domain; Region: BNR_2; pfam13088 416344002678 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416344002679 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344002680 fructose-1,6-bisphosphatase family protein; Region: PLN02628 416344002681 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 416344002682 AMP binding site [chemical binding]; other site 416344002683 metal binding site [ion binding]; metal-binding site 416344002684 active site 416344002685 aminopeptidase N; Provisional; Region: pepN; PRK14015 416344002686 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 416344002687 active site 416344002688 Zn binding site [ion binding]; other site 416344002689 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 416344002690 Predicted membrane protein [Function unknown]; Region: COG2119 416344002691 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 416344002692 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 416344002693 guanine deaminase; Provisional; Region: PRK09228 416344002694 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 416344002695 active site 416344002696 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 416344002697 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 416344002698 active site 416344002699 purine riboside binding site [chemical binding]; other site 416344002700 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 416344002701 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 416344002702 XdhC Rossmann domain; Region: XdhC_C; pfam13478 416344002703 disulfide bond formation protein B; Provisional; Region: PRK02110 416344002704 amidase; Provisional; Region: PRK07056 416344002705 Amidase; Region: Amidase; cl11426 416344002706 Transcriptional regulators [Transcription]; Region: GntR; COG1802 416344002707 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344002708 DNA-binding site [nucleotide binding]; DNA binding site 416344002709 FCD domain; Region: FCD; pfam07729 416344002710 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 416344002711 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 416344002712 catalytic triad [active] 416344002713 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 416344002714 citrate-proton symporter; Provisional; Region: PRK15075 416344002715 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 416344002716 putative substrate translocation pore; other site 416344002717 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 416344002718 TPR motif; other site 416344002719 binding surface 416344002720 TPR repeat; Region: TPR_11; pfam13414 416344002721 TPR repeat; Region: TPR_11; pfam13414 416344002722 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 416344002723 binding surface 416344002724 TPR motif; other site 416344002725 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 416344002726 TPR repeat; Region: TPR_11; pfam13414 416344002727 TPR motif; other site 416344002728 binding surface 416344002729 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 416344002730 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 416344002731 hypothetical protein; Provisional; Region: PRK06184 416344002732 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416344002733 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 416344002734 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 416344002735 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 416344002736 catalytic loop [active] 416344002737 iron binding site [ion binding]; other site 416344002738 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 416344002739 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 416344002740 [4Fe-4S] binding site [ion binding]; other site 416344002741 molybdopterin cofactor binding site; other site 416344002742 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 416344002743 molybdopterin cofactor binding site; other site 416344002744 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 416344002745 putative dimer interface [polypeptide binding]; other site 416344002746 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 416344002747 SLBB domain; Region: SLBB; pfam10531 416344002748 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 416344002749 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 416344002750 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 416344002751 putative dimer interface [polypeptide binding]; other site 416344002752 [2Fe-2S] cluster binding site [ion binding]; other site 416344002753 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 416344002754 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 416344002755 PBP superfamily domain; Region: PBP_like; pfam12727 416344002756 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344002757 phosphoglycolate phosphatase; Provisional; Region: PRK13222 416344002758 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 416344002759 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 416344002760 S-adenosylmethionine binding site [chemical binding]; other site 416344002761 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344002762 ligand binding site [chemical binding]; other site 416344002763 DNA gyrase subunit A; Validated; Region: PRK05560 416344002764 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 416344002765 CAP-like domain; other site 416344002766 active site 416344002767 primary dimer interface [polypeptide binding]; other site 416344002768 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416344002769 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416344002770 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416344002771 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416344002772 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416344002773 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416344002774 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 416344002775 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 416344002776 homodimer interface [polypeptide binding]; other site 416344002777 substrate-cofactor binding pocket; other site 416344002778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344002779 catalytic residue [active] 416344002780 Chorismate mutase type II; Region: CM_2; cl00693 416344002781 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 416344002782 Prephenate dehydratase; Region: PDT; pfam00800 416344002783 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 416344002784 putative L-Phe binding site [chemical binding]; other site 416344002785 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 416344002786 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 416344002787 hinge; other site 416344002788 active site 416344002789 cytidylate kinase; Provisional; Region: cmk; PRK00023 416344002790 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 416344002791 CMP-binding site; other site 416344002792 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 416344002793 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 416344002794 RNA binding site [nucleotide binding]; other site 416344002795 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 416344002796 RNA binding site [nucleotide binding]; other site 416344002797 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 416344002798 RNA binding site [nucleotide binding]; other site 416344002799 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 416344002800 RNA binding site [nucleotide binding]; other site 416344002801 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 416344002802 RNA binding site [nucleotide binding]; other site 416344002803 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 416344002804 RNA binding site [nucleotide binding]; other site 416344002805 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 416344002806 IHF dimer interface [polypeptide binding]; other site 416344002807 IHF - DNA interface [nucleotide binding]; other site 416344002808 tetratricopeptide repeat protein; Provisional; Region: PRK11788 416344002809 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 416344002810 binding surface 416344002811 TPR motif; other site 416344002812 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 416344002813 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 416344002814 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 416344002815 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 416344002816 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 416344002817 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416344002818 putative ribose interaction site [chemical binding]; other site 416344002819 putative ADP binding site [chemical binding]; other site 416344002820 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 416344002821 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 416344002822 NADP binding site [chemical binding]; other site 416344002823 homopentamer interface [polypeptide binding]; other site 416344002824 substrate binding site [chemical binding]; other site 416344002825 active site 416344002826 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 416344002827 cysteine synthase B; Region: cysM; TIGR01138 416344002828 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 416344002829 dimer interface [polypeptide binding]; other site 416344002830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344002831 catalytic residue [active] 416344002832 Transglycosylase SLT domain; Region: SLT_2; pfam13406 416344002833 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 416344002834 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416344002835 catalytic residue [active] 416344002836 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 416344002837 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 416344002838 putative active site [active] 416344002839 Zn binding site [ion binding]; other site 416344002840 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 416344002841 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344002842 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 416344002843 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 416344002844 Walker A/P-loop; other site 416344002845 ATP binding site [chemical binding]; other site 416344002846 Q-loop/lid; other site 416344002847 ABC transporter signature motif; other site 416344002848 Walker B; other site 416344002849 D-loop; other site 416344002850 H-loop/switch region; other site 416344002851 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 416344002852 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 416344002853 dimer interface [polypeptide binding]; other site 416344002854 conserved gate region; other site 416344002855 ABC-ATPase subunit interface; other site 416344002856 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 416344002857 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 416344002858 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 416344002859 Ligand binding site [chemical binding]; other site 416344002860 Electron transfer flavoprotein domain; Region: ETF; pfam01012 416344002861 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 416344002862 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 416344002863 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 416344002864 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 416344002865 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344002866 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416344002867 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 416344002868 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 416344002869 AsnC family; Region: AsnC_trans_reg; pfam01037 416344002870 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 416344002871 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 416344002872 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 416344002873 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 416344002874 RimM N-terminal domain; Region: RimM; pfam01782 416344002875 PRC-barrel domain; Region: PRC; pfam05239 416344002876 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 416344002877 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 416344002878 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 416344002879 putative active site [active] 416344002880 putative CoA binding site [chemical binding]; other site 416344002881 nudix motif; other site 416344002882 metal binding site [ion binding]; metal-binding site 416344002883 CobD/CbiB family protein; Provisional; Region: PRK07630 416344002884 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 416344002885 GTPase RsgA; Reviewed; Region: PRK00098 416344002886 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 416344002887 RNA binding site [nucleotide binding]; other site 416344002888 homodimer interface [polypeptide binding]; other site 416344002889 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 416344002890 GTPase/Zn-binding domain interface [polypeptide binding]; other site 416344002891 GTP/Mg2+ binding site [chemical binding]; other site 416344002892 G4 box; other site 416344002893 G5 box; other site 416344002894 G1 box; other site 416344002895 Switch I region; other site 416344002896 G2 box; other site 416344002897 G3 box; other site 416344002898 Switch II region; other site 416344002899 Peptidase family M48; Region: Peptidase_M48; pfam01435 416344002900 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 416344002901 catalytic site [active] 416344002902 putative active site [active] 416344002903 putative substrate binding site [chemical binding]; other site 416344002904 dimer interface [polypeptide binding]; other site 416344002905 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 416344002906 MPT binding site; other site 416344002907 trimer interface [polypeptide binding]; other site 416344002908 hypothetical protein; Provisional; Region: PRK05255 416344002909 peptidase PmbA; Provisional; Region: PRK11040 416344002910 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 416344002911 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 416344002912 folate binding site [chemical binding]; other site 416344002913 NADP+ binding site [chemical binding]; other site 416344002914 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 416344002915 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 416344002916 Walker A motif; other site 416344002917 ATP binding site [chemical binding]; other site 416344002918 Walker B motif; other site 416344002919 arginine finger; other site 416344002920 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 416344002921 thymidylate synthase; Provisional; Region: thyA; PRK13821 416344002922 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 416344002923 dimerization interface [polypeptide binding]; other site 416344002924 active site 416344002925 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 416344002926 dimerization interface [polypeptide binding]; other site 416344002927 putative DNA binding site [nucleotide binding]; other site 416344002928 putative Zn2+ binding site [ion binding]; other site 416344002929 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 416344002930 fumarate hydratase; Reviewed; Region: fumC; PRK00485 416344002931 Class II fumarases; Region: Fumarase_classII; cd01362 416344002932 active site 416344002933 tetramer interface [polypeptide binding]; other site 416344002934 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 416344002935 putative efflux protein, MATE family; Region: matE; TIGR00797 416344002936 cation binding site [ion binding]; other site 416344002937 S4 domain; Region: S4_2; pfam13275 416344002938 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 416344002939 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 416344002940 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 416344002941 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 416344002942 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416344002943 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344002944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 416344002945 CreA protein; Region: CreA; pfam05981 416344002946 Ferredoxin [Energy production and conversion]; Region: COG1146 416344002947 4Fe-4S binding domain; Region: Fer4; pfam00037 416344002948 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 416344002949 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 416344002950 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 416344002951 active site 416344002952 Uncharacterized conserved protein [Function unknown]; Region: COG1556 416344002953 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 416344002954 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 416344002955 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 416344002956 dimerization interface [polypeptide binding]; other site 416344002957 ligand binding site [chemical binding]; other site 416344002958 NADP binding site [chemical binding]; other site 416344002959 catalytic site [active] 416344002960 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 416344002961 RmuC family; Region: RmuC; pfam02646 416344002962 putative acetyltransferase; Provisional; Region: PRK03624 416344002963 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344002964 Coenzyme A binding pocket [chemical binding]; other site 416344002965 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 416344002966 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 416344002967 dimer interface [polypeptide binding]; other site 416344002968 putative functional site; other site 416344002969 putative MPT binding site; other site 416344002970 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 416344002971 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 416344002972 GTP binding site; other site 416344002973 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 416344002974 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 416344002975 FeS/SAM binding site; other site 416344002976 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 416344002977 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 416344002978 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 416344002979 homodimer interface [polypeptide binding]; other site 416344002980 oligonucleotide binding site [chemical binding]; other site 416344002981 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 416344002982 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 416344002983 RNA binding surface [nucleotide binding]; other site 416344002984 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 416344002985 active site 416344002986 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 416344002987 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 416344002988 motif II; other site 416344002989 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 416344002990 iron-sulfur cluster [ion binding]; other site 416344002991 [2Fe-2S] cluster binding site [ion binding]; other site 416344002992 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 416344002993 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 416344002994 tandem repeat interface [polypeptide binding]; other site 416344002995 oligomer interface [polypeptide binding]; other site 416344002996 active site residues [active] 416344002997 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 416344002998 putative SAM binding site [chemical binding]; other site 416344002999 homodimer interface [polypeptide binding]; other site 416344003000 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 416344003001 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 416344003002 putative phosphate acyltransferase; Provisional; Region: PRK05331 416344003003 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 416344003004 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 416344003005 dimer interface [polypeptide binding]; other site 416344003006 active site 416344003007 CoA binding pocket [chemical binding]; other site 416344003008 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 416344003009 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 416344003010 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 416344003011 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 416344003012 NAD(P) binding site [chemical binding]; other site 416344003013 homotetramer interface [polypeptide binding]; other site 416344003014 homodimer interface [polypeptide binding]; other site 416344003015 active site 416344003016 acyl carrier protein; Provisional; Region: acpP; PRK00982 416344003017 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 416344003018 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 416344003019 dimer interface [polypeptide binding]; other site 416344003020 active site 416344003021 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 416344003022 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344003023 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 416344003024 DNA binding residues [nucleotide binding] 416344003025 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 416344003026 anti-sigma E factor; Provisional; Region: rseB; PRK09455 416344003027 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 416344003028 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 416344003029 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 416344003030 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 416344003031 protein binding site [polypeptide binding]; other site 416344003032 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 416344003033 protein binding site [polypeptide binding]; other site 416344003034 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 416344003035 GTP-binding protein LepA; Provisional; Region: PRK05433 416344003036 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 416344003037 G1 box; other site 416344003038 putative GEF interaction site [polypeptide binding]; other site 416344003039 GTP/Mg2+ binding site [chemical binding]; other site 416344003040 Switch I region; other site 416344003041 G2 box; other site 416344003042 G3 box; other site 416344003043 Switch II region; other site 416344003044 G4 box; other site 416344003045 G5 box; other site 416344003046 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 416344003047 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 416344003048 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 416344003049 signal peptidase I; Provisional; Region: PRK10861 416344003050 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 416344003051 Catalytic site [active] 416344003052 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 416344003053 ribonuclease III; Reviewed; Region: PRK12372 416344003054 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 416344003055 dimerization interface [polypeptide binding]; other site 416344003056 active site 416344003057 metal binding site [ion binding]; metal-binding site 416344003058 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 416344003059 GTPase Era; Reviewed; Region: era; PRK00089 416344003060 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 416344003061 G1 box; other site 416344003062 GTP/Mg2+ binding site [chemical binding]; other site 416344003063 Switch I region; other site 416344003064 G2 box; other site 416344003065 Switch II region; other site 416344003066 G3 box; other site 416344003067 G4 box; other site 416344003068 G5 box; other site 416344003069 KH domain; Region: KH_2; pfam07650 416344003070 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 416344003071 Recombination protein O N terminal; Region: RecO_N; pfam11967 416344003072 Recombination protein O C terminal; Region: RecO_C; pfam02565 416344003073 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 416344003074 active site 416344003075 hydrophilic channel; other site 416344003076 dimerization interface [polypeptide binding]; other site 416344003077 catalytic residues [active] 416344003078 active site lid [active] 416344003079 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 416344003080 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 416344003081 beta-hexosaminidase; Provisional; Region: PRK05337 416344003082 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 416344003083 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 416344003084 active site 416344003085 phosphorylation site [posttranslational modification] 416344003086 intermolecular recognition site; other site 416344003087 dimerization interface [polypeptide binding]; other site 416344003088 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 416344003089 Walker A motif; other site 416344003090 ATP binding site [chemical binding]; other site 416344003091 Walker B motif; other site 416344003092 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344003093 elongation factor P; Validated; Region: PRK00529 416344003094 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 416344003095 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 416344003096 RNA binding site [nucleotide binding]; other site 416344003097 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 416344003098 RNA binding site [nucleotide binding]; other site 416344003099 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 416344003100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 416344003101 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 416344003102 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 416344003103 GIY-YIG motif/motif A; other site 416344003104 active site 416344003105 catalytic site [active] 416344003106 putative DNA binding site [nucleotide binding]; other site 416344003107 metal binding site [ion binding]; metal-binding site 416344003108 UvrB/uvrC motif; Region: UVR; pfam02151 416344003109 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 416344003110 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 416344003111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416344003112 Transposase; Region: HTH_Tnp_1; cl17663 416344003113 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 416344003114 Protein of unknown function (DUF3916); Region: DUF3916; pfam13079 416344003115 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 416344003116 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416344003117 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344003118 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 416344003119 non-specific DNA binding site [nucleotide binding]; other site 416344003120 salt bridge; other site 416344003121 sequence-specific DNA binding site [nucleotide binding]; other site 416344003122 Cupin domain; Region: Cupin_2; cl17218 416344003123 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 416344003124 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 416344003125 active site 416344003126 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 416344003127 LysR family transcriptional regulator; Provisional; Region: PRK14997 416344003128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003129 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 416344003130 putative effector binding pocket; other site 416344003131 putative dimerization interface [polypeptide binding]; other site 416344003132 Pirin-related protein [General function prediction only]; Region: COG1741 416344003133 Pirin; Region: Pirin; pfam02678 416344003134 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 416344003135 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416344003136 Coenzyme A binding pocket [chemical binding]; other site 416344003137 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 416344003138 Protein of unknown function (DUF461); Region: DUF461; pfam04314 416344003139 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 416344003140 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 416344003141 Cu(I) binding site [ion binding]; other site 416344003142 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 416344003143 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 416344003144 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 416344003145 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 416344003146 active site 416344003147 homotetramer interface [polypeptide binding]; other site 416344003148 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416344003149 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416344003150 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 416344003151 Walker A/P-loop; other site 416344003152 ATP binding site [chemical binding]; other site 416344003153 Q-loop/lid; other site 416344003154 ABC transporter signature motif; other site 416344003155 Walker B; other site 416344003156 D-loop; other site 416344003157 H-loop/switch region; other site 416344003158 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344003159 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 416344003160 putative ADP-binding pocket [chemical binding]; other site 416344003161 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 416344003162 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 416344003163 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 416344003164 active site 416344003165 tetramer interface [polypeptide binding]; other site 416344003166 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344003167 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 416344003168 DNA-binding site [nucleotide binding]; DNA binding site 416344003169 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 416344003170 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344003171 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 416344003172 dimerization interface [polypeptide binding]; other site 416344003173 ligand binding site [chemical binding]; other site 416344003174 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 416344003175 Phosphoesterase family; Region: Phosphoesterase; pfam04185 416344003176 Domain of unknown function (DUF756); Region: DUF756; pfam05506 416344003177 Domain of unknown function (DUF756); Region: DUF756; pfam05506 416344003178 pyridoxamine kinase; Validated; Region: PRK05756 416344003179 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 416344003180 dimer interface [polypeptide binding]; other site 416344003181 pyridoxal binding site [chemical binding]; other site 416344003182 ATP binding site [chemical binding]; other site 416344003183 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344003184 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344003185 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 416344003186 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 416344003187 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 416344003188 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 416344003189 ligand binding site; other site 416344003190 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 416344003191 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 416344003192 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 416344003193 B12 binding site [chemical binding]; other site 416344003194 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 416344003195 FeS/SAM binding site; other site 416344003196 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 416344003197 putative active site [active] 416344003198 YdjC motif; other site 416344003199 Mg binding site [ion binding]; other site 416344003200 putative homodimer interface [polypeptide binding]; other site 416344003201 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 416344003202 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 416344003203 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 416344003204 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416344003205 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 416344003206 dimer interface [polypeptide binding]; other site 416344003207 conserved gate region; other site 416344003208 putative PBP binding loops; other site 416344003209 ABC-ATPase subunit interface; other site 416344003210 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344003211 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 416344003212 conserved cys residue [active] 416344003213 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344003214 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344003215 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 416344003216 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 416344003217 inhibitor-cofactor binding pocket; inhibition site 416344003218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344003219 catalytic residue [active] 416344003220 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 416344003221 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 416344003222 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 416344003223 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 416344003224 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 416344003225 NAD(P) binding site [chemical binding]; other site 416344003226 catalytic residues [active] 416344003227 succinylarginine dihydrolase; Provisional; Region: PRK13281 416344003228 succinylglutamate desuccinylase; Provisional; Region: PRK05324 416344003229 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 416344003230 active site 416344003231 Zn binding site [ion binding]; other site 416344003232 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 416344003233 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 416344003234 substrate binding pocket [chemical binding]; other site 416344003235 membrane-bound complex binding site; other site 416344003236 hinge residues; other site 416344003237 HDOD domain; Region: HDOD; pfam08668 416344003238 PAS domain; Region: PAS_9; pfam13426 416344003239 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 416344003240 putative active site [active] 416344003241 heme pocket [chemical binding]; other site 416344003242 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344003243 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344003244 metal binding site [ion binding]; metal-binding site 416344003245 active site 416344003246 I-site; other site 416344003247 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 416344003248 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 416344003249 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344003250 catalytic triad [active] 416344003251 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 416344003252 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416344003253 NAD(P) binding site [chemical binding]; other site 416344003254 putative active site [active] 416344003255 NYN domain; Region: NYN; pfam01936 416344003256 putative metal binding site [ion binding]; other site 416344003257 Uncharacterized conserved protein [Function unknown]; Region: COG1432 416344003258 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 416344003259 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 416344003260 Protein export membrane protein; Region: SecD_SecF; cl14618 416344003261 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 416344003262 Protein export membrane protein; Region: SecD_SecF; cl14618 416344003263 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 416344003264 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344003265 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344003266 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 416344003267 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344003268 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344003269 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 416344003270 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 416344003271 Predicted transcriptional regulator [Transcription]; Region: COG1959 416344003272 Transcriptional regulator; Region: Rrf2; pfam02082 416344003273 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 416344003274 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416344003275 NAD binding site [chemical binding]; other site 416344003276 putative active site [active] 416344003277 substrate binding site [chemical binding]; other site 416344003278 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344003279 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 416344003280 putative DNA binding site [nucleotide binding]; other site 416344003281 putative Zn2+ binding site [ion binding]; other site 416344003282 AsnC family; Region: AsnC_trans_reg; pfam01037 416344003283 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 416344003284 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 416344003285 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 416344003286 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 416344003287 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 416344003288 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 416344003289 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 416344003290 Family description; Region: UvrD_C_2; pfam13538 416344003291 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 416344003292 AAA domain; Region: AAA_30; pfam13604 416344003293 Family description; Region: UvrD_C_2; pfam13538 416344003294 hypothetical protein; Provisional; Region: PRK09256 416344003295 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 416344003296 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 416344003297 EamA-like transporter family; Region: EamA; pfam00892 416344003298 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 416344003299 EamA-like transporter family; Region: EamA; pfam00892 416344003300 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 416344003301 ThiC-associated domain; Region: ThiC-associated; pfam13667 416344003302 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 416344003303 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 416344003304 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 416344003305 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 416344003306 Moco binding site; other site 416344003307 metal coordination site [ion binding]; other site 416344003308 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 416344003309 EamA-like transporter family; Region: EamA; pfam00892 416344003310 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 416344003311 putative substrate translocation pore; other site 416344003312 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 416344003313 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416344003314 active site 416344003315 metal binding site [ion binding]; metal-binding site 416344003316 hexamer interface [polypeptide binding]; other site 416344003317 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 416344003318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344003319 Walker A/P-loop; other site 416344003320 ATP binding site [chemical binding]; other site 416344003321 Q-loop/lid; other site 416344003322 ABC transporter signature motif; other site 416344003323 Walker B; other site 416344003324 D-loop; other site 416344003325 H-loop/switch region; other site 416344003326 TOBE domain; Region: TOBE_2; pfam08402 416344003327 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 416344003328 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 416344003329 dimer interface [polypeptide binding]; other site 416344003330 conserved gate region; other site 416344003331 putative PBP binding loops; other site 416344003332 ABC-ATPase subunit interface; other site 416344003333 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 416344003334 dimer interface [polypeptide binding]; other site 416344003335 conserved gate region; other site 416344003336 ABC-ATPase subunit interface; other site 416344003337 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416344003338 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 416344003339 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344003340 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344003341 DNA binding site [nucleotide binding] 416344003342 domain linker motif; other site 416344003343 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 416344003344 putative dimerization interface [polypeptide binding]; other site 416344003345 putative ligand binding site [chemical binding]; other site 416344003346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 416344003347 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344003348 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 416344003349 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344003350 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344003351 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 416344003352 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 416344003353 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344003354 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 416344003355 trimer interface [polypeptide binding]; other site 416344003356 eyelet of channel; other site 416344003357 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 416344003358 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 416344003359 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 416344003360 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 416344003361 Na binding site [ion binding]; other site 416344003362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344003363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003364 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 416344003365 dimerization interface [polypeptide binding]; other site 416344003366 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 416344003367 metabolite-proton symporter; Region: 2A0106; TIGR00883 416344003368 putative substrate translocation pore; other site 416344003369 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 416344003370 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 416344003371 active site 416344003372 Zn binding site [ion binding]; other site 416344003373 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 416344003374 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 416344003375 putative substrate translocation pore; other site 416344003376 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344003377 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003378 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 416344003379 dimerization interface [polypeptide binding]; other site 416344003380 substrate binding pocket [chemical binding]; other site 416344003381 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 416344003382 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 416344003383 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344003384 catalytic residue [active] 416344003385 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 416344003386 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 416344003387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003388 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 416344003389 dimerization interface [polypeptide binding]; other site 416344003390 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 416344003391 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 416344003392 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 416344003393 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 416344003394 putative dimer interface [polypeptide binding]; other site 416344003395 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 416344003396 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 416344003397 putative dimer interface [polypeptide binding]; other site 416344003398 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 416344003399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003400 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 416344003401 dimerization interface [polypeptide binding]; other site 416344003402 Malonate transporter MadL subunit; Region: MadL; cl04273 416344003403 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 416344003404 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 416344003405 Coenzyme A transferase; Region: CoA_trans; cl17247 416344003406 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 416344003407 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 416344003408 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 416344003409 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 416344003410 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 416344003411 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 416344003412 Acyl transferase domain; Region: Acyl_transf_1; cl08282 416344003413 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 416344003414 putative active site [active] 416344003415 catalytic site [active] 416344003416 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344003417 active site 416344003418 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 416344003419 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 416344003420 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344003421 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 416344003422 C-terminal domain interface [polypeptide binding]; other site 416344003423 GSH binding site (G-site) [chemical binding]; other site 416344003424 dimer interface [polypeptide binding]; other site 416344003425 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 416344003426 dimer interface [polypeptide binding]; other site 416344003427 N-terminal domain interface [polypeptide binding]; other site 416344003428 putative substrate binding pocket (H-site) [chemical binding]; other site 416344003429 proline/glycine betaine transporter; Provisional; Region: PRK10642 416344003430 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 416344003431 putative substrate translocation pore; other site 416344003432 hypothetical protein; Provisional; Region: PRK02237 416344003433 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 416344003434 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 416344003435 active site 416344003436 catalytic site [active] 416344003437 substrate binding site [chemical binding]; other site 416344003438 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 416344003439 RNA/DNA hybrid binding site [nucleotide binding]; other site 416344003440 active site 416344003441 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 416344003442 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 416344003443 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 416344003444 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 416344003445 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416344003446 catalytic residue [active] 416344003447 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 416344003448 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416344003449 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 416344003450 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344003451 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 416344003452 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 416344003453 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 416344003454 catalytic site [active] 416344003455 subunit interface [polypeptide binding]; other site 416344003456 leucine export protein LeuE; Provisional; Region: PRK10958 416344003457 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 416344003458 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416344003459 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 416344003460 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 416344003461 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416344003462 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416344003463 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 416344003464 IMP binding site; other site 416344003465 dimer interface [polypeptide binding]; other site 416344003466 interdomain contacts; other site 416344003467 partial ornithine binding site; other site 416344003468 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 416344003469 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 416344003470 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 416344003471 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 416344003472 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 416344003473 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 416344003474 FtsJ-like methyltransferase; Region: FtsJ; cl17430 416344003475 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 416344003476 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 416344003477 Walker A motif; other site 416344003478 ATP binding site [chemical binding]; other site 416344003479 Walker B motif; other site 416344003480 arginine finger; other site 416344003481 Peptidase family M41; Region: Peptidase_M41; pfam01434 416344003482 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 416344003483 dihydropteroate synthase; Region: DHPS; TIGR01496 416344003484 substrate binding pocket [chemical binding]; other site 416344003485 dimer interface [polypeptide binding]; other site 416344003486 inhibitor binding site; inhibition site 416344003487 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 416344003488 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 416344003489 active site 416344003490 substrate binding site [chemical binding]; other site 416344003491 metal binding site [ion binding]; metal-binding site 416344003492 PBP superfamily domain; Region: PBP_like_2; cl17296 416344003493 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 416344003494 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 416344003495 dimer interface [polypeptide binding]; other site 416344003496 conserved gate region; other site 416344003497 putative PBP binding loops; other site 416344003498 ABC-ATPase subunit interface; other site 416344003499 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 416344003500 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 416344003501 dimer interface [polypeptide binding]; other site 416344003502 conserved gate region; other site 416344003503 putative PBP binding loops; other site 416344003504 ABC-ATPase subunit interface; other site 416344003505 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 416344003506 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 416344003507 Walker A/P-loop; other site 416344003508 ATP binding site [chemical binding]; other site 416344003509 Q-loop/lid; other site 416344003510 ABC transporter signature motif; other site 416344003511 Walker B; other site 416344003512 D-loop; other site 416344003513 H-loop/switch region; other site 416344003514 transcriptional regulator PhoU; Provisional; Region: PRK11115 416344003515 PhoU domain; Region: PhoU; pfam01895 416344003516 PhoU domain; Region: PhoU; pfam01895 416344003517 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 416344003518 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 416344003519 active site 416344003520 phosphorylation site [posttranslational modification] 416344003521 intermolecular recognition site; other site 416344003522 dimerization interface [polypeptide binding]; other site 416344003523 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 416344003524 DNA binding site [nucleotide binding] 416344003525 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 416344003526 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 416344003527 dimer interface [polypeptide binding]; other site 416344003528 phosphorylation site [posttranslational modification] 416344003529 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 416344003530 ATP binding site [chemical binding]; other site 416344003531 Mg2+ binding site [ion binding]; other site 416344003532 G-X-G motif; other site 416344003533 polyphosphate kinase; Provisional; Region: PRK05443 416344003534 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 416344003535 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 416344003536 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 416344003537 putative domain interface [polypeptide binding]; other site 416344003538 putative active site [active] 416344003539 catalytic site [active] 416344003540 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 416344003541 putative domain interface [polypeptide binding]; other site 416344003542 putative active site [active] 416344003543 catalytic site [active] 416344003544 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 416344003545 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 416344003546 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; cd07040 416344003547 catalytic core [active] 416344003548 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 416344003549 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 416344003550 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 416344003551 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 416344003552 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416344003553 Peptidase family M23; Region: Peptidase_M23; pfam01551 416344003554 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 416344003555 active site 416344003556 catalytic residues [active] 416344003557 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 416344003558 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344003559 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344003560 WYL domain; Region: WYL; pfam13280 416344003561 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 416344003562 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 416344003563 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 416344003564 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416344003565 catalytic residue [active] 416344003566 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 416344003567 VirB7 interaction site; other site 416344003568 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344003569 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 416344003570 trimer interface [polypeptide binding]; other site 416344003571 eyelet of channel; other site 416344003572 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 416344003573 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 416344003574 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 416344003575 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 416344003576 putative acyl-acceptor binding pocket; other site 416344003577 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 416344003578 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 416344003579 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344003580 Putative methyltransferase; Region: Methyltransf_20; pfam12147 416344003581 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 416344003582 active site 416344003583 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 416344003584 active site 416344003585 catalytic residues [active] 416344003586 cellulose synthase regulator protein; Provisional; Region: PRK11114 416344003587 endo-1,4-D-glucanase; Provisional; Region: PRK11097 416344003588 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 416344003589 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 416344003590 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 416344003591 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 416344003592 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 416344003593 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 416344003594 DXD motif; other site 416344003595 PilZ domain; Region: PilZ; pfam07238 416344003596 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 416344003597 Pirin-related protein [General function prediction only]; Region: COG1741 416344003598 Pirin; Region: Pirin; pfam02678 416344003599 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 416344003600 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 416344003601 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 416344003602 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 416344003603 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 416344003604 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 416344003605 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 416344003606 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 416344003607 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 416344003608 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 416344003609 nudix motif; other site 416344003610 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 416344003611 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416344003612 active site 416344003613 HIGH motif; other site 416344003614 nucleotide binding site [chemical binding]; other site 416344003615 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 416344003616 KMSKS motif; other site 416344003617 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 416344003618 Serine hydrolase; Region: Ser_hydrolase; pfam06821 416344003619 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 416344003620 CoA-transferase family III; Region: CoA_transf_3; pfam02515 416344003621 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 416344003622 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 416344003623 motif 1; other site 416344003624 active site 416344003625 motif 2; other site 416344003626 motif 3; other site 416344003627 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 416344003628 DHHA1 domain; Region: DHHA1; pfam02272 416344003629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344003630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003631 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 416344003632 dimerization interface [polypeptide binding]; other site 416344003633 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 416344003634 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 416344003635 nudix motif; other site 416344003636 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 416344003637 active site 416344003638 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 416344003639 TM-ABC transporter signature motif; other site 416344003640 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 416344003641 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 416344003642 TM-ABC transporter signature motif; other site 416344003643 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 416344003644 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 416344003645 Walker A/P-loop; other site 416344003646 ATP binding site [chemical binding]; other site 416344003647 Q-loop/lid; other site 416344003648 ABC transporter signature motif; other site 416344003649 Walker B; other site 416344003650 D-loop; other site 416344003651 H-loop/switch region; other site 416344003652 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 416344003653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344003654 NAD(P) binding site [chemical binding]; other site 416344003655 active site 416344003656 Domain of unknown function (DUF336); Region: DUF336; cl01249 416344003657 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 416344003658 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 416344003659 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416344003660 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 416344003661 substrate binding site [chemical binding]; other site 416344003662 ATP binding site [chemical binding]; other site 416344003663 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 416344003664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 416344003665 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 416344003666 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 416344003667 putative ligand binding site [chemical binding]; other site 416344003668 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 416344003669 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416344003670 Walker A/P-loop; other site 416344003671 ATP binding site [chemical binding]; other site 416344003672 Q-loop/lid; other site 416344003673 ABC transporter signature motif; other site 416344003674 Walker B; other site 416344003675 D-loop; other site 416344003676 H-loop/switch region; other site 416344003677 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416344003678 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344003679 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 416344003680 TM-ABC transporter signature motif; other site 416344003681 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416344003682 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416344003683 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 416344003684 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416344003685 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416344003686 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 416344003687 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416344003688 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416344003689 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 416344003690 putative active site [active] 416344003691 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 416344003692 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 416344003693 tetrameric interface [polypeptide binding]; other site 416344003694 NAD binding site [chemical binding]; other site 416344003695 catalytic residues [active] 416344003696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344003697 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003698 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 416344003699 putative effector binding pocket; other site 416344003700 dimerization interface [polypeptide binding]; other site 416344003701 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 416344003702 CPxP motif; other site 416344003703 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344003704 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 416344003705 active site 416344003706 phosphorylation site [posttranslational modification] 416344003707 intermolecular recognition site; other site 416344003708 dimerization interface [polypeptide binding]; other site 416344003709 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 416344003710 DNA binding site [nucleotide binding] 416344003711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 416344003712 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416344003713 FecR protein; Region: FecR; pfam04773 416344003714 CHASE2 domain; Region: CHASE2; pfam05226 416344003715 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 416344003716 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 416344003717 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 416344003718 dimer interface [polypeptide binding]; other site 416344003719 phosphorylation site [posttranslational modification] 416344003720 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 416344003721 ATP binding site [chemical binding]; other site 416344003722 Mg2+ binding site [ion binding]; other site 416344003723 G-X-G motif; other site 416344003724 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 416344003725 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 416344003726 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 416344003727 active site 416344003728 tetramer interface; other site 416344003729 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 416344003730 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 416344003731 HIGH motif; other site 416344003732 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416344003733 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 416344003734 active site 416344003735 KMSKS motif; other site 416344003736 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 416344003737 tRNA binding surface [nucleotide binding]; other site 416344003738 anticodon binding site; other site 416344003739 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 416344003740 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 416344003741 Part of AAA domain; Region: AAA_19; pfam13245 416344003742 Family description; Region: UvrD_C_2; pfam13538 416344003743 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 416344003744 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 416344003745 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 416344003746 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344003747 putative substrate translocation pore; other site 416344003748 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344003749 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344003750 dimer interface [polypeptide binding]; other site 416344003751 putative CheW interface [polypeptide binding]; other site 416344003752 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 416344003753 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344003754 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344003755 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 416344003756 Fusaric acid resistance protein family; Region: FUSC; pfam04632 416344003757 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 416344003758 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344003759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344003760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003761 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 416344003762 putative effector binding pocket; other site 416344003763 dimerization interface [polypeptide binding]; other site 416344003764 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416344003765 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 416344003766 putative active site [active] 416344003767 putative metal binding site [ion binding]; other site 416344003768 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 416344003769 FAD binding domain; Region: FAD_binding_4; pfam01565 416344003770 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 416344003771 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 416344003772 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344003773 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 416344003774 Protein of unknown function (DUF962); Region: DUF962; cl01879 416344003775 FOG: CBS domain [General function prediction only]; Region: COG0517 416344003776 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 416344003777 H+ Antiporter protein; Region: 2A0121; TIGR00900 416344003778 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 416344003779 putative substrate translocation pore; other site 416344003780 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 416344003781 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 416344003782 putative acyl-acceptor binding pocket; other site 416344003783 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 416344003784 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 416344003785 Tetramer interface [polypeptide binding]; other site 416344003786 active site 416344003787 FMN-binding site [chemical binding]; other site 416344003788 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344003789 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344003790 DNA binding site [nucleotide binding] 416344003791 domain linker motif; other site 416344003792 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 416344003793 putative dimerization interface [polypeptide binding]; other site 416344003794 putative ligand binding site [chemical binding]; other site 416344003795 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416344003796 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 416344003797 substrate binding site [chemical binding]; other site 416344003798 dimer interface [polypeptide binding]; other site 416344003799 ATP binding site [chemical binding]; other site 416344003800 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 416344003801 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 416344003802 inhibitor site; inhibition site 416344003803 active site 416344003804 dimer interface [polypeptide binding]; other site 416344003805 catalytic residue [active] 416344003806 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 416344003807 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344003808 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 416344003809 short chain dehydrogenase; Provisional; Region: PRK06949 416344003810 classical (c) SDRs; Region: SDR_c; cd05233 416344003811 NAD(P) binding site [chemical binding]; other site 416344003812 active site 416344003813 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 416344003814 active site 416344003815 PAS domain; Region: PAS_9; pfam13426 416344003816 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 416344003817 putative active site [active] 416344003818 heme pocket [chemical binding]; other site 416344003819 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 416344003820 DNA binding residues [nucleotide binding] 416344003821 dimerization interface [polypeptide binding]; other site 416344003822 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 416344003823 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 416344003824 short chain dehydrogenase; Provisional; Region: PRK07041 416344003825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344003826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344003827 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 416344003828 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 416344003829 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 416344003830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344003831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003832 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 416344003833 putative effector binding pocket; other site 416344003834 dimerization interface [polypeptide binding]; other site 416344003835 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344003836 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344003837 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 416344003838 homotrimer interaction site [polypeptide binding]; other site 416344003839 putative active site [active] 416344003840 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 416344003841 HD domain; Region: HD_4; pfam13328 416344003842 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416344003843 synthetase active site [active] 416344003844 NTP binding site [chemical binding]; other site 416344003845 metal binding site [ion binding]; metal-binding site 416344003846 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 416344003847 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 416344003848 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 416344003849 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 416344003850 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 416344003851 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 416344003852 active site 416344003853 dimer interface [polypeptide binding]; other site 416344003854 motif 1; other site 416344003855 motif 2; other site 416344003856 motif 3; other site 416344003857 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 416344003858 anticodon binding site; other site 416344003859 translation initiation factor IF-3; Region: infC; TIGR00168 416344003860 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 416344003861 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 416344003862 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 416344003863 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 416344003864 23S rRNA binding site [nucleotide binding]; other site 416344003865 L21 binding site [polypeptide binding]; other site 416344003866 L13 binding site [polypeptide binding]; other site 416344003867 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 416344003868 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 416344003869 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 416344003870 dimer interface [polypeptide binding]; other site 416344003871 motif 1; other site 416344003872 active site 416344003873 motif 2; other site 416344003874 motif 3; other site 416344003875 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 416344003876 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 416344003877 putative tRNA-binding site [nucleotide binding]; other site 416344003878 B3/4 domain; Region: B3_4; pfam03483 416344003879 tRNA synthetase B5 domain; Region: B5; smart00874 416344003880 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 416344003881 dimer interface [polypeptide binding]; other site 416344003882 motif 1; other site 416344003883 motif 3; other site 416344003884 motif 2; other site 416344003885 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 416344003886 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 416344003887 IHF dimer interface [polypeptide binding]; other site 416344003888 IHF - DNA interface [nucleotide binding]; other site 416344003889 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416344003890 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 416344003891 DNA binding residues [nucleotide binding] 416344003892 Methyltransferase domain; Region: Methyltransf_23; pfam13489 416344003893 Methyltransferase domain; Region: Methyltransf_12; pfam08242 416344003894 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 416344003895 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 416344003896 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 416344003897 Uncharacterized conserved protein [Function unknown]; Region: COG1434 416344003898 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 416344003899 putative active site [active] 416344003900 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 416344003901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344003902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344003903 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 416344003904 putative dimerization interface [polypeptide binding]; other site 416344003905 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 416344003906 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 416344003907 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 416344003908 RNA binding surface [nucleotide binding]; other site 416344003909 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 416344003910 probable active site [active] 416344003911 ribosome maturation protein RimP; Reviewed; Region: PRK00092 416344003912 Sm and related proteins; Region: Sm_like; cl00259 416344003913 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 416344003914 putative oligomer interface [polypeptide binding]; other site 416344003915 putative RNA binding site [nucleotide binding]; other site 416344003916 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 416344003917 NusA N-terminal domain; Region: NusA_N; pfam08529 416344003918 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 416344003919 RNA binding site [nucleotide binding]; other site 416344003920 homodimer interface [polypeptide binding]; other site 416344003921 NusA-like KH domain; Region: KH_5; pfam13184 416344003922 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 416344003923 G-X-X-G motif; other site 416344003924 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 416344003925 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 416344003926 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 416344003927 translation initiation factor IF-2; Region: IF-2; TIGR00487 416344003928 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 416344003929 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 416344003930 G1 box; other site 416344003931 putative GEF interaction site [polypeptide binding]; other site 416344003932 GTP/Mg2+ binding site [chemical binding]; other site 416344003933 Switch I region; other site 416344003934 G2 box; other site 416344003935 G3 box; other site 416344003936 Switch II region; other site 416344003937 G4 box; other site 416344003938 G5 box; other site 416344003939 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 416344003940 Translation-initiation factor 2; Region: IF-2; pfam11987 416344003941 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 416344003942 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 416344003943 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 416344003944 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 416344003945 RNA binding site [nucleotide binding]; other site 416344003946 active site 416344003947 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 416344003948 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416344003949 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 416344003950 putative substrate translocation pore; other site 416344003951 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 416344003952 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 416344003953 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344003954 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 416344003955 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344003956 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344003957 MarR family; Region: MarR_2; cl17246 416344003958 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 416344003959 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 416344003960 G1 box; other site 416344003961 putative GEF interaction site [polypeptide binding]; other site 416344003962 GTP/Mg2+ binding site [chemical binding]; other site 416344003963 Switch I region; other site 416344003964 G2 box; other site 416344003965 G3 box; other site 416344003966 Switch II region; other site 416344003967 G4 box; other site 416344003968 G5 box; other site 416344003969 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 416344003970 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 416344003971 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 416344003972 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 416344003973 TPP-binding site [chemical binding]; other site 416344003974 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 416344003975 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 416344003976 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 416344003977 E3 interaction surface; other site 416344003978 lipoyl attachment site [posttranslational modification]; other site 416344003979 e3 binding domain; Region: E3_binding; pfam02817 416344003980 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 416344003981 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 416344003982 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344003983 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416344003984 Predicted ATPase [General function prediction only]; Region: COG1485 416344003985 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344003986 Walker B; other site 416344003987 D-loop; other site 416344003988 H-loop/switch region; other site 416344003989 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 416344003990 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 416344003991 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 416344003992 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 416344003993 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 416344003994 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 416344003995 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 416344003996 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 416344003997 TadE-like protein; Region: TadE; pfam07811 416344003998 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 416344003999 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 416344004000 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 416344004001 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 416344004002 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 416344004003 AAA domain; Region: AAA_31; pfam13614 416344004004 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 416344004005 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 416344004006 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 416344004007 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 416344004008 ATP binding site [chemical binding]; other site 416344004009 Walker A motif; other site 416344004010 hexamer interface [polypeptide binding]; other site 416344004011 Walker B motif; other site 416344004012 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 416344004013 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344004014 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 416344004015 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344004016 TPR repeat; Region: TPR_11; pfam13414 416344004017 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 416344004018 binding surface 416344004019 TPR motif; other site 416344004020 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 416344004021 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 416344004022 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 416344004023 Walker A motif; other site 416344004024 ATP binding site [chemical binding]; other site 416344004025 Walker B motif; other site 416344004026 arginine finger; other site 416344004027 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344004028 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 416344004029 bacterial Hfq-like; Region: Hfq; cd01716 416344004030 hexamer interface [polypeptide binding]; other site 416344004031 Sm1 motif; other site 416344004032 RNA binding site [nucleotide binding]; other site 416344004033 Sm2 motif; other site 416344004034 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 416344004035 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 416344004036 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 416344004037 acyl-activating enzyme (AAE) consensus motif; other site 416344004038 putative AMP binding site [chemical binding]; other site 416344004039 putative active site [active] 416344004040 putative CoA binding site [chemical binding]; other site 416344004041 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344004042 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344004043 putative sialic acid transporter; Region: 2A0112; TIGR00891 416344004044 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 416344004045 putative substrate translocation pore; other site 416344004046 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416344004047 Putative ParB-like nuclease; Region: ParBc_2; cl17538 416344004048 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 416344004049 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 416344004050 Sulfate transporter family; Region: Sulfate_transp; pfam00916 416344004051 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 416344004052 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 416344004053 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 416344004054 putative ligand binding site [chemical binding]; other site 416344004055 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344004056 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 416344004057 TM-ABC transporter signature motif; other site 416344004058 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 416344004059 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416344004060 Walker A/P-loop; other site 416344004061 ATP binding site [chemical binding]; other site 416344004062 Q-loop/lid; other site 416344004063 ABC transporter signature motif; other site 416344004064 Walker B; other site 416344004065 D-loop; other site 416344004066 H-loop/switch region; other site 416344004067 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416344004068 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 416344004069 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416344004070 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 416344004071 ribonuclease R; Region: RNase_R; TIGR02063 416344004072 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 416344004073 RNB domain; Region: RNB; pfam00773 416344004074 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 416344004075 RNA binding site [nucleotide binding]; other site 416344004076 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 416344004077 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 416344004078 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 416344004079 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 416344004080 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416344004081 active site 416344004082 dimer interface [polypeptide binding]; other site 416344004083 Transcriptional regulators [Transcription]; Region: FadR; COG2186 416344004084 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344004085 DNA-binding site [nucleotide binding]; DNA binding site 416344004086 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 416344004087 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416344004088 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416344004089 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416344004090 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 416344004091 dimer interface [polypeptide binding]; other site 416344004092 conserved gate region; other site 416344004093 putative PBP binding loops; other site 416344004094 ABC-ATPase subunit interface; other site 416344004095 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344004096 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 416344004097 substrate binding pocket [chemical binding]; other site 416344004098 membrane-bound complex binding site; other site 416344004099 hinge residues; other site 416344004100 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 416344004101 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 416344004102 active site 416344004103 catalytic residues [active] 416344004104 FMN binding site [chemical binding]; other site 416344004105 quinone interaction residues [chemical binding]; other site 416344004106 substrate binding site [chemical binding]; other site 416344004107 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 416344004108 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 416344004109 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 416344004110 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 416344004111 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 416344004112 nudix motif; other site 416344004113 hypothetical protein; Provisional; Region: PRK02487 416344004114 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 416344004115 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 416344004116 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 416344004117 substrate binding site [chemical binding]; other site 416344004118 oxyanion hole (OAH) forming residues; other site 416344004119 trimer interface [polypeptide binding]; other site 416344004120 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 416344004121 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 416344004122 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 416344004123 active site 416344004124 dimer interface [polypeptide binding]; other site 416344004125 non-prolyl cis peptide bond; other site 416344004126 insertion regions; other site 416344004127 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 416344004128 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 416344004129 dimer interface [polypeptide binding]; other site 416344004130 conserved gate region; other site 416344004131 putative PBP binding loops; other site 416344004132 ABC-ATPase subunit interface; other site 416344004133 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 416344004134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344004135 Walker A/P-loop; other site 416344004136 ATP binding site [chemical binding]; other site 416344004137 Q-loop/lid; other site 416344004138 ABC transporter signature motif; other site 416344004139 Walker B; other site 416344004140 D-loop; other site 416344004141 H-loop/switch region; other site 416344004142 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 416344004143 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 416344004144 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 416344004145 FMN binding site [chemical binding]; other site 416344004146 active site 416344004147 catalytic residues [active] 416344004148 substrate binding site [chemical binding]; other site 416344004149 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 416344004150 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 416344004151 PAS domain; Region: PAS_9; pfam13426 416344004152 putative active site [active] 416344004153 heme pocket [chemical binding]; other site 416344004154 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 416344004155 PAS domain; Region: PAS_9; pfam13426 416344004156 putative active site [active] 416344004157 heme pocket [chemical binding]; other site 416344004158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 416344004159 Histidine kinase; Region: HisKA_3; pfam07730 416344004160 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 416344004161 ATP binding site [chemical binding]; other site 416344004162 Mg2+ binding site [ion binding]; other site 416344004163 G-X-G motif; other site 416344004164 Family of unknown function (DUF695); Region: DUF695; pfam05117 416344004165 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 416344004166 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 416344004167 putative dimer interface [polypeptide binding]; other site 416344004168 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344004169 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 416344004170 GAF domain; Region: GAF; pfam01590 416344004171 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344004172 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344004173 metal binding site [ion binding]; metal-binding site 416344004174 active site 416344004175 I-site; other site 416344004176 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 416344004177 PLD-like domain; Region: PLDc_2; pfam13091 416344004178 putative active site [active] 416344004179 catalytic site [active] 416344004180 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 416344004181 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416344004182 active site 416344004183 catalytic tetrad [active] 416344004184 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 416344004185 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 416344004186 active site residue [active] 416344004187 Predicted permease; Region: DUF318; cl17795 416344004188 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 416344004189 ABC-2 type transporter; Region: ABC2_membrane; cl17235 416344004190 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416344004191 nodulation ABC transporter NodI; Provisional; Region: PRK13537 416344004192 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416344004193 Walker A/P-loop; other site 416344004194 ATP binding site [chemical binding]; other site 416344004195 Q-loop/lid; other site 416344004196 ABC transporter signature motif; other site 416344004197 Walker B; other site 416344004198 D-loop; other site 416344004199 H-loop/switch region; other site 416344004200 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 416344004201 Ligand Binding Site [chemical binding]; other site 416344004202 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 416344004203 LexA repressor; Validated; Region: PRK00215 416344004204 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 416344004205 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 416344004206 Catalytic site [active] 416344004207 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 416344004208 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 416344004209 substrate binding pocket [chemical binding]; other site 416344004210 membrane-bound complex binding site; other site 416344004211 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 416344004212 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 416344004213 dimer interface [polypeptide binding]; other site 416344004214 conserved gate region; other site 416344004215 putative PBP binding loops; other site 416344004216 ABC-ATPase subunit interface; other site 416344004217 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 416344004218 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 416344004219 dimer interface [polypeptide binding]; other site 416344004220 conserved gate region; other site 416344004221 putative PBP binding loops; other site 416344004222 ABC-ATPase subunit interface; other site 416344004223 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 416344004224 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 416344004225 Walker A/P-loop; other site 416344004226 ATP binding site [chemical binding]; other site 416344004227 Q-loop/lid; other site 416344004228 ABC transporter signature motif; other site 416344004229 Walker B; other site 416344004230 D-loop; other site 416344004231 H-loop/switch region; other site 416344004232 TOBE-like domain; Region: TOBE_3; pfam12857 416344004233 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 416344004234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344004235 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 416344004236 substrate binding site [chemical binding]; other site 416344004237 dimerization interface [polypeptide binding]; other site 416344004238 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 416344004239 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 416344004240 ligand binding site [chemical binding]; other site 416344004241 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344004242 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 416344004243 TM-ABC transporter signature motif; other site 416344004244 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344004245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344004246 DNA binding site [nucleotide binding] 416344004247 domain linker motif; other site 416344004248 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 416344004249 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416344004250 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 416344004251 substrate binding site [chemical binding]; other site 416344004252 dimer interface [polypeptide binding]; other site 416344004253 ATP binding site [chemical binding]; other site 416344004254 Tar ligand binding domain homologue; Region: TarH; pfam02203 416344004255 HAMP domain; Region: HAMP; pfam00672 416344004256 dimerization interface [polypeptide binding]; other site 416344004257 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344004258 dimer interface [polypeptide binding]; other site 416344004259 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 416344004260 putative CheW interface [polypeptide binding]; other site 416344004261 PrkA family serine protein kinase; Provisional; Region: PRK15455 416344004262 AAA ATPase domain; Region: AAA_16; pfam13191 416344004263 Walker A motif; other site 416344004264 ATP binding site [chemical binding]; other site 416344004265 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 416344004266 hypothetical protein; Provisional; Region: PRK05325 416344004267 SpoVR family protein; Provisional; Region: PRK11767 416344004268 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 416344004269 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 416344004270 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 416344004271 putative substrate translocation pore; other site 416344004272 Rhomboid family; Region: Rhomboid; pfam01694 416344004273 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 416344004274 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344004275 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 416344004276 substrate binding pocket [chemical binding]; other site 416344004277 membrane-bound complex binding site; other site 416344004278 hinge residues; other site 416344004279 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 416344004280 dimer interface [polypeptide binding]; other site 416344004281 conserved gate region; other site 416344004282 putative PBP binding loops; other site 416344004283 ABC-ATPase subunit interface; other site 416344004284 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 416344004285 dimer interface [polypeptide binding]; other site 416344004286 conserved gate region; other site 416344004287 putative PBP binding loops; other site 416344004288 ABC-ATPase subunit interface; other site 416344004289 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 416344004290 Peptidase family M23; Region: Peptidase_M23; pfam01551 416344004291 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 416344004292 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344004293 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 416344004294 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344004295 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344004296 multidrug efflux protein; Reviewed; Region: PRK09577 416344004297 Protein export membrane protein; Region: SecD_SecF; cl14618 416344004298 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344004299 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 416344004300 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344004301 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 416344004302 MbtH-like protein; Region: MbtH; cl01279 416344004303 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 416344004304 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 416344004305 Walker A/P-loop; other site 416344004306 ATP binding site [chemical binding]; other site 416344004307 Q-loop/lid; other site 416344004308 ABC transporter signature motif; other site 416344004309 Walker B; other site 416344004310 D-loop; other site 416344004311 H-loop/switch region; other site 416344004312 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 416344004313 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 416344004314 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 416344004315 ABC-ATPase subunit interface; other site 416344004316 dimer interface [polypeptide binding]; other site 416344004317 putative PBP binding regions; other site 416344004318 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 416344004319 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 416344004320 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 416344004321 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 416344004322 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 416344004323 siderophore binding site; other site 416344004324 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 416344004325 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 416344004326 Walker A/P-loop; other site 416344004327 ATP binding site [chemical binding]; other site 416344004328 Q-loop/lid; other site 416344004329 ABC transporter signature motif; other site 416344004330 Walker B; other site 416344004331 D-loop; other site 416344004332 H-loop/switch region; other site 416344004333 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344004334 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 416344004335 acyl-activating enzyme (AAE) consensus motif; other site 416344004336 AMP binding site [chemical binding]; other site 416344004337 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344004338 Condensation domain; Region: Condensation; pfam00668 416344004339 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344004340 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 416344004341 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416344004342 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344004343 acyl-activating enzyme (AAE) consensus motif; other site 416344004344 AMP binding site [chemical binding]; other site 416344004345 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344004346 Condensation domain; Region: Condensation; pfam00668 416344004347 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 416344004348 Condensation domain; Region: Condensation; pfam00668 416344004349 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344004350 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 416344004351 acyl-activating enzyme (AAE) consensus motif; other site 416344004352 AMP binding site [chemical binding]; other site 416344004353 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344004354 Condensation domain; Region: Condensation; pfam00668 416344004355 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 416344004356 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344004357 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 416344004358 acyl-activating enzyme (AAE) consensus motif; other site 416344004359 AMP binding site [chemical binding]; other site 416344004360 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344004361 Condensation domain; Region: Condensation; pfam00668 416344004362 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344004363 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 416344004364 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 416344004365 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344004366 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 416344004367 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 416344004368 N-terminal plug; other site 416344004369 ligand-binding site [chemical binding]; other site 416344004370 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 416344004371 catalytic site [active] 416344004372 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 416344004373 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 416344004374 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 416344004375 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416344004376 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 416344004377 metal binding site [ion binding]; metal-binding site 416344004378 putative dimer interface [polypeptide binding]; other site 416344004379 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 416344004380 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 416344004381 catalytic triad [active] 416344004382 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 416344004383 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 416344004384 homodimer interface [polypeptide binding]; other site 416344004385 Walker A motif; other site 416344004386 ATP binding site [chemical binding]; other site 416344004387 hydroxycobalamin binding site [chemical binding]; other site 416344004388 Walker B motif; other site 416344004389 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 416344004390 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 416344004391 active site 416344004392 SAM binding site [chemical binding]; other site 416344004393 homodimer interface [polypeptide binding]; other site 416344004394 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 416344004395 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 416344004396 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 416344004397 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 416344004398 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 416344004399 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 416344004400 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 416344004401 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 416344004402 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 416344004403 Walker A motif; other site 416344004404 ATP binding site [chemical binding]; other site 416344004405 Walker B motif; other site 416344004406 arginine finger; other site 416344004407 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 416344004408 metal ion-dependent adhesion site (MIDAS); other site 416344004409 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 416344004410 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 416344004411 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 416344004412 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 416344004413 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 416344004414 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 416344004415 active site 416344004416 SAM binding site [chemical binding]; other site 416344004417 homodimer interface [polypeptide binding]; other site 416344004418 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 416344004419 active site 416344004420 SAM binding site [chemical binding]; other site 416344004421 homodimer interface [polypeptide binding]; other site 416344004422 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 416344004423 Precorrin-8X methylmutase; Region: CbiC; pfam02570 416344004424 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 416344004425 active site 416344004426 putative homodimer interface [polypeptide binding]; other site 416344004427 SAM binding site [chemical binding]; other site 416344004428 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 416344004429 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 416344004430 S-adenosylmethionine binding site [chemical binding]; other site 416344004431 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 416344004432 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 416344004433 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 416344004434 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 416344004435 active site 416344004436 SAM binding site [chemical binding]; other site 416344004437 homodimer interface [polypeptide binding]; other site 416344004438 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 416344004439 MarR family; Region: MarR_2; cl17246 416344004440 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344004441 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344004442 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 416344004443 C-terminal domain interface [polypeptide binding]; other site 416344004444 GSH binding site (G-site) [chemical binding]; other site 416344004445 dimer interface [polypeptide binding]; other site 416344004446 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 416344004447 dimer interface [polypeptide binding]; other site 416344004448 N-terminal domain interface [polypeptide binding]; other site 416344004449 Nitronate monooxygenase; Region: NMO; pfam03060 416344004450 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 416344004451 FMN binding site [chemical binding]; other site 416344004452 substrate binding site [chemical binding]; other site 416344004453 putative catalytic residue [active] 416344004454 Uncharacterized conserved protein [Function unknown]; Region: COG3791 416344004455 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344004456 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 416344004457 DNA binding residues [nucleotide binding] 416344004458 dimerization interface [polypeptide binding]; other site 416344004459 Predicted amidohydrolase [General function prediction only]; Region: COG0388 416344004460 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 416344004461 putative active site [active] 416344004462 catalytic triad [active] 416344004463 putative dimer interface [polypeptide binding]; other site 416344004464 amino acid transporter; Region: 2A0306; TIGR00909 416344004465 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344004466 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344004467 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 416344004468 putative substrate binding pocket [chemical binding]; other site 416344004469 putative dimerization interface [polypeptide binding]; other site 416344004470 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 416344004471 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344004472 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416344004473 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 416344004474 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344004475 putative active site [active] 416344004476 putative metal binding site [ion binding]; other site 416344004477 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 416344004478 iron-sulfur cluster [ion binding]; other site 416344004479 [2Fe-2S] cluster binding site [ion binding]; other site 416344004480 hypothetical protein; Provisional; Region: PRK06847 416344004481 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416344004482 Putative cyclase; Region: Cyclase; pfam04199 416344004483 Cupin domain; Region: Cupin_2; pfam07883 416344004484 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 416344004485 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 416344004486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344004487 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416344004488 NAD(P) binding site [chemical binding]; other site 416344004489 active site 416344004490 Helix-turn-helix domain; Region: HTH_28; pfam13518 416344004491 Winged helix-turn helix; Region: HTH_29; pfam13551 416344004492 Homeodomain-like domain; Region: HTH_32; pfam13565 416344004493 Integrase core domain; Region: rve; pfam00665 416344004494 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 416344004495 putative deacylase active site [active] 416344004496 YciI-like protein; Reviewed; Region: PRK12866 416344004497 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 416344004498 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 416344004499 oligomer interface [polypeptide binding]; other site 416344004500 metal binding site [ion binding]; metal-binding site 416344004501 metal binding site [ion binding]; metal-binding site 416344004502 putative Cl binding site [ion binding]; other site 416344004503 basic sphincter; other site 416344004504 hydrophobic gate; other site 416344004505 periplasmic entrance; other site 416344004506 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 416344004507 AAA domain; Region: AAA_33; pfam13671 416344004508 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 416344004509 active site 416344004510 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 416344004511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344004512 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344004513 AsnC family; Region: AsnC_trans_reg; pfam01037 416344004514 LTXXQ motif family protein; Region: LTXXQ; pfam07813 416344004515 PGDYG protein; Region: PGDYG; pfam14083 416344004516 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 416344004517 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 416344004518 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344004519 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344004520 DNA binding site [nucleotide binding] 416344004521 domain linker motif; other site 416344004522 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 416344004523 putative ligand binding site [chemical binding]; other site 416344004524 putative dimerization interface [polypeptide binding]; other site 416344004525 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 416344004526 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 416344004527 dimerization interface [polypeptide binding]; other site 416344004528 ligand binding site [chemical binding]; other site 416344004529 NADP binding site [chemical binding]; other site 416344004530 catalytic site [active] 416344004531 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 416344004532 D-galactonate transporter; Region: 2A0114; TIGR00893 416344004533 putative substrate translocation pore; other site 416344004534 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416344004535 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 416344004536 substrate binding site [chemical binding]; other site 416344004537 ATP binding site [chemical binding]; other site 416344004538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344004539 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 416344004540 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 416344004541 putative dimerization interface [polypeptide binding]; other site 416344004542 Predicted membrane protein [Function unknown]; Region: COG2855 416344004543 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 416344004544 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 416344004545 Cl- selectivity filter; other site 416344004546 Cl- binding residues [ion binding]; other site 416344004547 pore gating glutamate residue; other site 416344004548 dimer interface [polypeptide binding]; other site 416344004549 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 416344004550 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344004551 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344004552 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 416344004553 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344004554 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344004555 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 416344004556 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344004557 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 416344004558 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416344004559 DNA binding residues [nucleotide binding] 416344004560 putative dimer interface [polypeptide binding]; other site 416344004561 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 416344004562 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 416344004563 PAS fold; Region: PAS_4; pfam08448 416344004564 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 416344004565 putative active site [active] 416344004566 heme pocket [chemical binding]; other site 416344004567 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 416344004568 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416344004569 Walker A motif; other site 416344004570 ATP binding site [chemical binding]; other site 416344004571 Walker B motif; other site 416344004572 arginine finger; other site 416344004573 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 416344004574 Putative phosphatase (DUF442); Region: DUF442; cl17385 416344004575 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 416344004576 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 416344004577 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 416344004578 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 416344004579 dimer interface [polypeptide binding]; other site 416344004580 conserved gate region; other site 416344004581 putative PBP binding loops; other site 416344004582 ABC-ATPase subunit interface; other site 416344004583 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 416344004584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344004585 Walker A/P-loop; other site 416344004586 ATP binding site [chemical binding]; other site 416344004587 Q-loop/lid; other site 416344004588 ABC transporter signature motif; other site 416344004589 Walker B; other site 416344004590 D-loop; other site 416344004591 H-loop/switch region; other site 416344004592 TOBE domain; Region: TOBE_2; pfam08402 416344004593 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 416344004594 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416344004595 Predicted Fe-S protein [General function prediction only]; Region: COG3313 416344004596 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 416344004597 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 416344004598 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 416344004599 FMN binding site [chemical binding]; other site 416344004600 substrate binding site [chemical binding]; other site 416344004601 putative catalytic residue [active] 416344004602 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 416344004603 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344004604 NAD binding site [chemical binding]; other site 416344004605 catalytic residues [active] 416344004606 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344004607 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 416344004608 putative DNA binding site [nucleotide binding]; other site 416344004609 putative Zn2+ binding site [ion binding]; other site 416344004610 AsnC family; Region: AsnC_trans_reg; pfam01037 416344004611 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 416344004612 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 416344004613 putative NAD(P) binding site [chemical binding]; other site 416344004614 catalytic Zn binding site [ion binding]; other site 416344004615 structural Zn binding site [ion binding]; other site 416344004616 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 416344004617 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416344004618 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416344004619 ABC transporter; Region: ABC_tran_2; pfam12848 416344004620 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416344004621 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 416344004622 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 416344004623 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 416344004624 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344004625 Walker A/P-loop; other site 416344004626 ATP binding site [chemical binding]; other site 416344004627 Q-loop/lid; other site 416344004628 ABC transporter signature motif; other site 416344004629 Walker B; other site 416344004630 D-loop; other site 416344004631 H-loop/switch region; other site 416344004632 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 416344004633 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 416344004634 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 416344004635 putative NAD(P) binding site [chemical binding]; other site 416344004636 dimer interface [polypeptide binding]; other site 416344004637 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344004638 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344004639 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 416344004640 putative effector binding pocket; other site 416344004641 dimerization interface [polypeptide binding]; other site 416344004642 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 416344004643 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 416344004644 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 416344004645 motif II; other site 416344004646 cystathionine beta-lyase; Provisional; Region: PRK07050 416344004647 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 416344004648 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344004649 catalytic residue [active] 416344004650 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 416344004651 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416344004652 substrate binding site [chemical binding]; other site 416344004653 ATP binding site [chemical binding]; other site 416344004654 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 416344004655 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 416344004656 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 416344004657 FeS/SAM binding site; other site 416344004658 TRAM domain; Region: TRAM; pfam01938 416344004659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 416344004660 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 416344004661 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 416344004662 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 416344004663 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 416344004664 NAD(P) binding site [chemical binding]; other site 416344004665 homotetramer interface [polypeptide binding]; other site 416344004666 homodimer interface [polypeptide binding]; other site 416344004667 active site 416344004668 putative acyltransferase; Provisional; Region: PRK05790 416344004669 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 416344004670 dimer interface [polypeptide binding]; other site 416344004671 active site 416344004672 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 416344004673 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 416344004674 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 416344004675 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 416344004676 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 416344004677 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 416344004678 RNA binding surface [nucleotide binding]; other site 416344004679 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 416344004680 active site 416344004681 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 416344004682 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 416344004683 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 416344004684 DEAD_2; Region: DEAD_2; pfam06733 416344004685 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 416344004686 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 416344004687 Protein of unknown function (DUF465); Region: DUF465; pfam04325 416344004688 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 416344004689 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 416344004690 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 416344004691 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 416344004692 RNA binding site [nucleotide binding]; other site 416344004693 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 416344004694 potassium uptake protein; Region: kup; TIGR00794 416344004695 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 416344004696 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344004697 active site 416344004698 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 416344004699 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 416344004700 GDP-binding site [chemical binding]; other site 416344004701 ACT binding site; other site 416344004702 IMP binding site; other site 416344004703 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 416344004704 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 416344004705 dimer interface [polypeptide binding]; other site 416344004706 motif 1; other site 416344004707 active site 416344004708 motif 2; other site 416344004709 motif 3; other site 416344004710 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 416344004711 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 416344004712 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 416344004713 HflK protein; Region: hflK; TIGR01933 416344004714 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 416344004715 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 416344004716 HflX GTPase family; Region: HflX; cd01878 416344004717 G1 box; other site 416344004718 GTP/Mg2+ binding site [chemical binding]; other site 416344004719 Switch I region; other site 416344004720 G2 box; other site 416344004721 G3 box; other site 416344004722 Switch II region; other site 416344004723 G4 box; other site 416344004724 G5 box; other site 416344004725 bacterial Hfq-like; Region: Hfq; cd01716 416344004726 hexamer interface [polypeptide binding]; other site 416344004727 Sm1 motif; other site 416344004728 RNA binding site [nucleotide binding]; other site 416344004729 Sm2 motif; other site 416344004730 GTP-binding protein Der; Reviewed; Region: PRK00093 416344004731 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 416344004732 GTP/Mg2+ binding site [chemical binding]; other site 416344004733 Switch I region; other site 416344004734 G2 box; other site 416344004735 Switch II region; other site 416344004736 G3 box; other site 416344004737 G4 box; other site 416344004738 G5 box; other site 416344004739 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 416344004740 G1 box; other site 416344004741 GTP/Mg2+ binding site [chemical binding]; other site 416344004742 Switch I region; other site 416344004743 G2 box; other site 416344004744 G3 box; other site 416344004745 Switch II region; other site 416344004746 G4 box; other site 416344004747 G5 box; other site 416344004748 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 416344004749 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 416344004750 Trp docking motif [polypeptide binding]; other site 416344004751 active site 416344004752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 416344004753 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 416344004754 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 416344004755 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 416344004756 dimer interface [polypeptide binding]; other site 416344004757 motif 1; other site 416344004758 active site 416344004759 motif 2; other site 416344004760 motif 3; other site 416344004761 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 416344004762 anticodon binding site; other site 416344004763 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 416344004764 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 416344004765 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 416344004766 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 416344004767 non-specific DNA binding site [nucleotide binding]; other site 416344004768 salt bridge; other site 416344004769 sequence-specific DNA binding site [nucleotide binding]; other site 416344004770 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 416344004771 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 416344004772 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 416344004773 FeS/SAM binding site; other site 416344004774 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 416344004775 active site 416344004776 multimer interface [polypeptide binding]; other site 416344004777 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 416344004778 YccA-like proteins; Region: YccA_like; cd10433 416344004779 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 416344004780 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 416344004781 S-adenosylmethionine binding site [chemical binding]; other site 416344004782 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 416344004783 putative catalytic site [active] 416344004784 putative metal binding site [ion binding]; other site 416344004785 putative phosphate binding site [ion binding]; other site 416344004786 putative catalytic site [active] 416344004787 putative phosphate binding site [ion binding]; other site 416344004788 putative metal binding site [ion binding]; other site 416344004789 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 416344004790 active site 416344004791 catalytic site [active] 416344004792 substrate binding site [chemical binding]; other site 416344004793 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 416344004794 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 416344004795 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 416344004796 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344004797 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 416344004798 DNA binding residues [nucleotide binding] 416344004799 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416344004800 Peptidase family M23; Region: Peptidase_M23; pfam01551 416344004801 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 416344004802 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 416344004803 S-adenosylmethionine binding site [chemical binding]; other site 416344004804 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 416344004805 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 416344004806 CoA-transferase family III; Region: CoA_transf_3; pfam02515 416344004807 recombination protein RecR; Reviewed; Region: recR; PRK00076 416344004808 RecR protein; Region: RecR; pfam02132 416344004809 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 416344004810 putative active site [active] 416344004811 putative metal-binding site [ion binding]; other site 416344004812 tetramer interface [polypeptide binding]; other site 416344004813 hypothetical protein; Validated; Region: PRK00153 416344004814 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 416344004815 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 416344004816 Walker A motif; other site 416344004817 ATP binding site [chemical binding]; other site 416344004818 Walker B motif; other site 416344004819 arginine finger; other site 416344004820 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 416344004821 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 416344004822 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344004823 catalytic residues [active] 416344004824 transcription termination factor Rho; Provisional; Region: rho; PRK09376 416344004825 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 416344004826 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 416344004827 RNA binding site [nucleotide binding]; other site 416344004828 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 416344004829 multimer interface [polypeptide binding]; other site 416344004830 Walker A motif; other site 416344004831 ATP binding site [chemical binding]; other site 416344004832 Walker B motif; other site 416344004833 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 416344004834 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416344004835 DNA binding residues [nucleotide binding] 416344004836 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 416344004837 putative substrate translocation pore; other site 416344004838 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416344004839 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 416344004840 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 416344004841 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 416344004842 multidrug efflux protein; Reviewed; Region: PRK01766 416344004843 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 416344004844 cation binding site [ion binding]; other site 416344004845 lipoyl synthase; Provisional; Region: PRK12928 416344004846 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 416344004847 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 416344004848 E3 interaction surface; other site 416344004849 lipoyl attachment site [posttranslational modification]; other site 416344004850 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 416344004851 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 416344004852 alpha subunit interface [polypeptide binding]; other site 416344004853 TPP binding site [chemical binding]; other site 416344004854 heterodimer interface [polypeptide binding]; other site 416344004855 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416344004856 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 416344004857 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 416344004858 tetramer interface [polypeptide binding]; other site 416344004859 TPP-binding site [chemical binding]; other site 416344004860 heterodimer interface [polypeptide binding]; other site 416344004861 phosphorylation loop region [posttranslational modification] 416344004862 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 416344004863 ATP-NAD kinase; Region: NAD_kinase; pfam01513 416344004864 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 416344004865 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 416344004866 Walker A motif; other site 416344004867 ATP binding site [chemical binding]; other site 416344004868 Walker B motif; other site 416344004869 arginine finger; other site 416344004870 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344004871 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 416344004872 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416344004873 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 416344004874 DNA binding residues [nucleotide binding] 416344004875 putative dimer interface [polypeptide binding]; other site 416344004876 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 416344004877 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 416344004878 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 416344004879 Clp amino terminal domain; Region: Clp_N; pfam02861 416344004880 Clp amino terminal domain; Region: Clp_N; pfam02861 416344004881 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 416344004882 Walker A motif; other site 416344004883 ATP binding site [chemical binding]; other site 416344004884 Walker B motif; other site 416344004885 arginine finger; other site 416344004886 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 416344004887 Walker A motif; other site 416344004888 ATP binding site [chemical binding]; other site 416344004889 Walker B motif; other site 416344004890 arginine finger; other site 416344004891 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 416344004892 Transcriptional regulator; Region: Rrf2; cl17282 416344004893 Rrf2 family protein; Region: rrf2_super; TIGR00738 416344004894 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 416344004895 apolar tunnel; other site 416344004896 heme binding site [chemical binding]; other site 416344004897 dimerization interface [polypeptide binding]; other site 416344004898 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 416344004899 MoaE homodimer interface [polypeptide binding]; other site 416344004900 MoaD interaction [polypeptide binding]; other site 416344004901 active site residues [active] 416344004902 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 416344004903 MoaE interaction surface [polypeptide binding]; other site 416344004904 MoeB interaction surface [polypeptide binding]; other site 416344004905 thiocarboxylated glycine; other site 416344004906 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 416344004907 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 416344004908 dimer interface [polypeptide binding]; other site 416344004909 putative functional site; other site 416344004910 putative MPT binding site; other site 416344004911 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 416344004912 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 416344004913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344004914 catalytic residue [active] 416344004915 homoserine dehydrogenase; Provisional; Region: PRK06349 416344004916 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 416344004917 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 416344004918 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 416344004919 aminotransferase AlaT; Validated; Region: PRK09265 416344004920 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 416344004921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344004922 homodimer interface [polypeptide binding]; other site 416344004923 catalytic residue [active] 416344004924 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 416344004925 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 416344004926 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 416344004927 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 416344004928 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 416344004929 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 416344004930 inhibitor-cofactor binding pocket; inhibition site 416344004931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344004932 catalytic residue [active] 416344004933 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 416344004934 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416344004935 Ligand binding site; other site 416344004936 Putative Catalytic site; other site 416344004937 DXD motif; other site 416344004938 putative formyltransferase; Provisional; Region: PRK06988 416344004939 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 416344004940 active site 416344004941 substrate binding site [chemical binding]; other site 416344004942 cosubstrate binding site; other site 416344004943 catalytic site [active] 416344004944 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 416344004945 active site 416344004946 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 416344004947 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 416344004948 NAD binding site [chemical binding]; other site 416344004949 substrate binding site [chemical binding]; other site 416344004950 active site 416344004951 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 416344004952 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 416344004953 putative active site [active] 416344004954 putative catalytic site [active] 416344004955 putative Zn binding site [ion binding]; other site 416344004956 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 416344004957 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344004958 catalytic triad [active] 416344004959 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 416344004960 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 416344004961 putative active site [active] 416344004962 PhoH-like protein; Region: PhoH; pfam02562 416344004963 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 416344004964 NlpC/P60 family; Region: NLPC_P60; pfam00877 416344004965 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 416344004966 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 416344004967 replicative DNA helicase; Provisional; Region: PRK07004 416344004968 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 416344004969 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 416344004970 Walker A motif; other site 416344004971 ATP binding site [chemical binding]; other site 416344004972 Walker B motif; other site 416344004973 DNA binding loops [nucleotide binding] 416344004974 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 416344004975 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 416344004976 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 416344004977 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 416344004978 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 416344004979 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 416344004980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344004981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344004982 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 416344004983 putative effector binding pocket; other site 416344004984 dimerization interface [polypeptide binding]; other site 416344004985 glyoxylate carboligase; Provisional; Region: PRK11269 416344004986 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416344004987 PYR/PP interface [polypeptide binding]; other site 416344004988 dimer interface [polypeptide binding]; other site 416344004989 TPP binding site [chemical binding]; other site 416344004990 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416344004991 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 416344004992 TPP-binding site [chemical binding]; other site 416344004993 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416344004994 tartronate semialdehyde reductase; Provisional; Region: PRK15059 416344004995 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 416344004996 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416344004997 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 416344004998 active site 416344004999 homodimer interface [polypeptide binding]; other site 416344005000 homotetramer interface [polypeptide binding]; other site 416344005001 psiF repeat; Region: PsiF_repeat; pfam07769 416344005002 psiF repeat; Region: PsiF_repeat; pfam07769 416344005003 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 416344005004 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 416344005005 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344005006 putative ADP-binding pocket [chemical binding]; other site 416344005007 Predicted ATPase [General function prediction only]; Region: COG4637 416344005008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344005009 Walker A/P-loop; other site 416344005010 ATP binding site [chemical binding]; other site 416344005011 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 416344005012 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416344005013 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 416344005014 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 416344005015 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 416344005016 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 416344005017 active site 416344005018 DNA polymerase III subunit delta'; Validated; Region: PRK06964 416344005019 DNA polymerase III subunit delta'; Validated; Region: PRK08485 416344005020 thymidylate kinase; Validated; Region: tmk; PRK00698 416344005021 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 416344005022 TMP-binding site; other site 416344005023 ATP-binding site [chemical binding]; other site 416344005024 YceG-like family; Region: YceG; pfam02618 416344005025 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 416344005026 dimerization interface [polypeptide binding]; other site 416344005027 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 416344005028 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 416344005029 NRDE protein; Region: NRDE; cl01315 416344005030 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 416344005031 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344005032 Coenzyme A binding pocket [chemical binding]; other site 416344005033 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 416344005034 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 416344005035 substrate binding pocket [chemical binding]; other site 416344005036 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 416344005037 CoenzymeA binding site [chemical binding]; other site 416344005038 subunit interaction site [polypeptide binding]; other site 416344005039 PHB binding site; other site 416344005040 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 416344005041 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416344005042 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416344005043 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 416344005044 putative active site [active] 416344005045 catalytic site [active] 416344005046 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; cl10015 416344005047 homotrimer interaction site [polypeptide binding]; other site 416344005048 putative active site [active] 416344005049 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 416344005050 putative substrate translocation pore; other site 416344005051 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344005052 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416344005053 Right handed beta helix region; Region: Beta_helix; pfam13229 416344005054 Right handed beta helix region; Region: Beta_helix; pfam13229 416344005055 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344005056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344005057 metal binding site [ion binding]; metal-binding site 416344005058 active site 416344005059 I-site; other site 416344005060 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 416344005061 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 416344005062 dimer interface [polypeptide binding]; other site 416344005063 active site 416344005064 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 416344005065 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 416344005066 substrate binding site [chemical binding]; other site 416344005067 oxyanion hole (OAH) forming residues; other site 416344005068 trimer interface [polypeptide binding]; other site 416344005069 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 416344005070 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344005071 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344005072 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 416344005073 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 416344005074 dimer interface [polypeptide binding]; other site 416344005075 acyl-activating enzyme (AAE) consensus motif; other site 416344005076 putative active site [active] 416344005077 AMP binding site [chemical binding]; other site 416344005078 putative CoA binding site [chemical binding]; other site 416344005079 Uncharacterized conserved protein [Function unknown]; Region: COG0397 416344005080 hypothetical protein; Validated; Region: PRK00029 416344005081 methionine sulfoxide reductase B; Provisional; Region: PRK00222 416344005082 SelR domain; Region: SelR; pfam01641 416344005083 intracellular septation protein A; Reviewed; Region: PRK00259 416344005084 BolA-like protein; Region: BolA; pfam01722 416344005085 SurA N-terminal domain; Region: SurA_N_3; cl07813 416344005086 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 416344005087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 416344005088 Transposase; Region: DDE_Tnp_ISL3; pfam01610 416344005089 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344005090 Coenzyme A binding pocket [chemical binding]; other site 416344005091 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 416344005092 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 416344005093 dimerization interface [polypeptide binding]; other site 416344005094 ATP binding site [chemical binding]; other site 416344005095 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 416344005096 dimerization interface [polypeptide binding]; other site 416344005097 ATP binding site [chemical binding]; other site 416344005098 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 416344005099 putative active site [active] 416344005100 catalytic triad [active] 416344005101 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 416344005102 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 416344005103 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 416344005104 putative substrate binding site [chemical binding]; other site 416344005105 putative ATP binding site [chemical binding]; other site 416344005106 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 416344005107 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 416344005108 active site 416344005109 dimer interface [polypeptide binding]; other site 416344005110 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 416344005111 dimer interface [polypeptide binding]; other site 416344005112 active site 416344005113 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 416344005114 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416344005115 Walker A/P-loop; other site 416344005116 ATP binding site [chemical binding]; other site 416344005117 Q-loop/lid; other site 416344005118 ABC transporter signature motif; other site 416344005119 Walker B; other site 416344005120 D-loop; other site 416344005121 H-loop/switch region; other site 416344005122 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 416344005123 active site 416344005124 catalytic triad [active] 416344005125 oxyanion hole [active] 416344005126 switch loop; other site 416344005127 SurA N-terminal domain; Region: SurA_N_3; cl07813 416344005128 periplasmic folding chaperone; Provisional; Region: PRK10788 416344005129 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 416344005130 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 416344005131 Found in ATP-dependent protease La (LON); Region: LON; smart00464 416344005132 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 416344005133 Walker A motif; other site 416344005134 ATP binding site [chemical binding]; other site 416344005135 Walker B motif; other site 416344005136 arginine finger; other site 416344005137 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 416344005138 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 416344005139 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 416344005140 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 416344005141 Walker A motif; other site 416344005142 ATP binding site [chemical binding]; other site 416344005143 Walker B motif; other site 416344005144 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 416344005145 Clp protease; Region: CLP_protease; pfam00574 416344005146 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 416344005147 oligomer interface [polypeptide binding]; other site 416344005148 active site residues [active] 416344005149 trigger factor; Provisional; Region: tig; PRK01490 416344005150 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 416344005151 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 416344005152 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 416344005153 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344005154 MarR family; Region: MarR_2; pfam12802 416344005155 MarR family; Region: MarR_2; cl17246 416344005156 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 416344005157 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 416344005158 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 416344005159 integrase; Provisional; Region: PRK09692 416344005160 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 416344005161 active site 416344005162 Int/Topo IB signature motif; other site 416344005163 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 416344005164 active site lid residues [active] 416344005165 substrate binding pocket [chemical binding]; other site 416344005166 catalytic residues [active] 416344005167 substrate-Mg2+ binding site; other site 416344005168 aspartate-rich region 1; other site 416344005169 aspartate-rich region 2; other site 416344005170 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 416344005171 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 416344005172 osmolarity response regulator; Provisional; Region: ompR; PRK09468 416344005173 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 416344005174 active site 416344005175 phosphorylation site [posttranslational modification] 416344005176 intermolecular recognition site; other site 416344005177 dimerization interface [polypeptide binding]; other site 416344005178 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 416344005179 DNA binding site [nucleotide binding] 416344005180 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 416344005181 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 416344005182 dimer interface [polypeptide binding]; other site 416344005183 phosphorylation site [posttranslational modification] 416344005184 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 416344005185 ATP binding site [chemical binding]; other site 416344005186 Mg2+ binding site [ion binding]; other site 416344005187 G-X-G motif; other site 416344005188 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 416344005189 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 416344005190 dimer interface [polypeptide binding]; other site 416344005191 decamer (pentamer of dimers) interface [polypeptide binding]; other site 416344005192 catalytic triad [active] 416344005193 peroxidatic and resolving cysteines [active] 416344005194 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 416344005195 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 416344005196 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 416344005197 homotrimer interaction site [polypeptide binding]; other site 416344005198 zinc binding site [ion binding]; other site 416344005199 CDP-binding sites; other site 416344005200 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 416344005201 substrate binding site; other site 416344005202 dimer interface; other site 416344005203 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 416344005204 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 416344005205 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 416344005206 ATP binding site [chemical binding]; other site 416344005207 putative Mg++ binding site [ion binding]; other site 416344005208 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 416344005209 nucleotide binding region [chemical binding]; other site 416344005210 ATP-binding site [chemical binding]; other site 416344005211 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 416344005212 acetylornithine deacetylase; Provisional; Region: PRK07522 416344005213 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 416344005214 metal binding site [ion binding]; metal-binding site 416344005215 putative dimer interface [polypeptide binding]; other site 416344005216 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 416344005217 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 416344005218 tetramer interface [polypeptide binding]; other site 416344005219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344005220 catalytic residue [active] 416344005221 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 416344005222 Transglycosylase; Region: Transgly; pfam00912 416344005223 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 416344005224 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 416344005225 Tetratricopeptide repeat; Region: TPR_16; pfam13432 416344005226 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 416344005227 TPR motif; other site 416344005228 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 416344005229 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 416344005230 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 416344005231 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416344005232 Dodecin; Region: Dodecin; pfam07311 416344005233 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344005234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344005235 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 416344005236 putative substrate binding pocket [chemical binding]; other site 416344005237 putative dimerization interface [polypeptide binding]; other site 416344005238 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 416344005239 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 416344005240 active site 416344005241 putative substrate binding pocket [chemical binding]; other site 416344005242 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 416344005243 active site 416344005244 homotetramer interface [polypeptide binding]; other site 416344005245 Predicted membrane protein [Function unknown]; Region: COG3748 416344005246 Protein of unknown function (DUF989); Region: DUF989; pfam06181 416344005247 Cytochrome c; Region: Cytochrom_C; pfam00034 416344005248 ureidoglycolate hydrolase; Provisional; Region: PRK03606 416344005249 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 416344005250 allantoicase; Provisional; Region: PRK13257 416344005251 Allantoicase repeat; Region: Allantoicase; pfam03561 416344005252 Allantoicase repeat; Region: Allantoicase; pfam03561 416344005253 OHCU decarboxylase; Region: UHCUDC; TIGR03164 416344005254 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 416344005255 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 416344005256 active site 416344005257 catalytic site [active] 416344005258 tetramer interface [polypeptide binding]; other site 416344005259 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 416344005260 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 416344005261 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 416344005262 Na binding site [ion binding]; other site 416344005263 putative substrate binding site [chemical binding]; other site 416344005264 Transcriptional regulators [Transcription]; Region: GntR; COG1802 416344005265 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344005266 DNA-binding site [nucleotide binding]; DNA binding site 416344005267 FCD domain; Region: FCD; pfam07729 416344005268 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 416344005269 dimer interface [polypeptide binding]; other site 416344005270 catalytic triad [active] 416344005271 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 416344005272 nucleoside/Zn binding site; other site 416344005273 dimer interface [polypeptide binding]; other site 416344005274 catalytic motif [active] 416344005275 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 416344005276 GMP synthase; Reviewed; Region: guaA; PRK00074 416344005277 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 416344005278 AMP/PPi binding site [chemical binding]; other site 416344005279 candidate oxyanion hole; other site 416344005280 catalytic triad [active] 416344005281 potential glutamine specificity residues [chemical binding]; other site 416344005282 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 416344005283 ATP Binding subdomain [chemical binding]; other site 416344005284 Ligand Binding sites [chemical binding]; other site 416344005285 Dimerization subdomain; other site 416344005286 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 416344005287 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 416344005288 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 416344005289 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 416344005290 active site 416344005291 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 416344005292 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 416344005293 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 416344005294 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416344005295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 416344005296 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 416344005297 putative coenzyme Q binding site [chemical binding]; other site 416344005298 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 416344005299 SmpB-tmRNA interface; other site 416344005300 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 416344005301 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 416344005302 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 416344005303 phosphoenolpyruvate synthase; Validated; Region: PRK06464 416344005304 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 416344005305 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 416344005306 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 416344005307 PEP synthetase regulatory protein; Provisional; Region: PRK05339 416344005308 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 416344005309 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 416344005310 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 416344005311 RNA/DNA hybrid binding site [nucleotide binding]; other site 416344005312 active site 416344005313 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 416344005314 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 416344005315 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 416344005316 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 416344005317 active site 416344005318 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 416344005319 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 416344005320 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 416344005321 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 416344005322 trimer interface [polypeptide binding]; other site 416344005323 active site 416344005324 UDP-GlcNAc binding site [chemical binding]; other site 416344005325 lipid binding site [chemical binding]; lipid-binding site 416344005326 periplasmic chaperone; Provisional; Region: PRK10780 416344005327 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 416344005328 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 416344005329 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416344005330 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416344005331 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416344005332 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416344005333 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416344005334 Surface antigen; Region: Bac_surface_Ag; pfam01103 416344005335 zinc metallopeptidase RseP; Provisional; Region: PRK10779 416344005336 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 416344005337 active site 416344005338 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 416344005339 protein binding site [polypeptide binding]; other site 416344005340 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 416344005341 putative substrate binding region [chemical binding]; other site 416344005342 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 416344005343 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 416344005344 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 416344005345 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 416344005346 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 416344005347 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 416344005348 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; cl00230 416344005349 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 416344005350 catalytic residue [active] 416344005351 putative FPP diphosphate binding site; other site 416344005352 putative FPP binding hydrophobic cleft; other site 416344005353 dimer interface [polypeptide binding]; other site 416344005354 putative IPP diphosphate binding site; other site 416344005355 ribosome recycling factor; Reviewed; Region: frr; PRK00083 416344005356 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 416344005357 hinge region; other site 416344005358 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 416344005359 putative nucleotide binding site [chemical binding]; other site 416344005360 uridine monophosphate binding site [chemical binding]; other site 416344005361 homohexameric interface [polypeptide binding]; other site 416344005362 elongation factor Ts; Provisional; Region: tsf; PRK09377 416344005363 UBA/TS-N domain; Region: UBA; pfam00627 416344005364 Elongation factor TS; Region: EF_TS; pfam00889 416344005365 Elongation factor TS; Region: EF_TS; pfam00889 416344005366 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 416344005367 rRNA interaction site [nucleotide binding]; other site 416344005368 S8 interaction site; other site 416344005369 putative laminin-1 binding site; other site 416344005370 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 416344005371 active site 416344005372 PII uridylyl-transferase; Provisional; Region: PRK03059 416344005373 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 416344005374 metal binding triad; other site 416344005375 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 416344005376 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416344005377 Zn2+ binding site [ion binding]; other site 416344005378 Mg2+ binding site [ion binding]; other site 416344005379 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 416344005380 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 416344005381 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 416344005382 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 416344005383 RNA binding surface [nucleotide binding]; other site 416344005384 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 416344005385 active site 416344005386 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 416344005387 active site 416344005388 catalytic residues [active] 416344005389 metal binding site [ion binding]; metal-binding site 416344005390 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 416344005391 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 416344005392 nucleotide binding pocket [chemical binding]; other site 416344005393 K-X-D-G motif; other site 416344005394 catalytic site [active] 416344005395 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 416344005396 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 416344005397 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 416344005398 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 416344005399 Dimer interface [polypeptide binding]; other site 416344005400 BRCT sequence motif; other site 416344005401 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 416344005402 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 416344005403 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 416344005404 Walker A/P-loop; other site 416344005405 ATP binding site [chemical binding]; other site 416344005406 Q-loop/lid; other site 416344005407 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 416344005408 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 416344005409 Q-loop/lid; other site 416344005410 ABC transporter signature motif; other site 416344005411 Walker B; other site 416344005412 D-loop; other site 416344005413 H-loop/switch region; other site 416344005414 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416344005415 EamA-like transporter family; Region: EamA; pfam00892 416344005416 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 416344005417 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 416344005418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344005419 homodimer interface [polypeptide binding]; other site 416344005420 catalytic residue [active] 416344005421 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 416344005422 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 416344005423 trimer interface [polypeptide binding]; other site 416344005424 active site 416344005425 substrate binding site [chemical binding]; other site 416344005426 CoA binding site [chemical binding]; other site 416344005427 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 416344005428 ArsC family; Region: ArsC; pfam03960 416344005429 putative catalytic residues [active] 416344005430 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 416344005431 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 416344005432 metal binding site [ion binding]; metal-binding site 416344005433 dimer interface [polypeptide binding]; other site 416344005434 HemK family putative methylases; Region: hemK_fam; TIGR00536 416344005435 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 416344005436 S-adenosylmethionine binding site [chemical binding]; other site 416344005437 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 416344005438 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 416344005439 putative active site [active] 416344005440 catalytic site [active] 416344005441 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 416344005442 putative active site [active] 416344005443 catalytic site [active] 416344005444 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 416344005445 catalytic residues [active] 416344005446 dimer interface [polypeptide binding]; other site 416344005447 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 416344005448 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416344005449 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416344005450 ABC transporter; Region: ABC_tran_2; pfam12848 416344005451 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416344005452 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 416344005453 DNA repair protein RadA; Provisional; Region: PRK11823 416344005454 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 416344005455 Walker A motif/ATP binding site; other site 416344005456 ATP binding site [chemical binding]; other site 416344005457 Walker B motif; other site 416344005458 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 416344005459 alanine racemase; Reviewed; Region: dadX; PRK03646 416344005460 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 416344005461 active site 416344005462 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416344005463 substrate binding site [chemical binding]; other site 416344005464 catalytic residues [active] 416344005465 dimer interface [polypeptide binding]; other site 416344005466 lysophospholipid transporter LplT; Provisional; Region: PRK11195 416344005467 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 416344005468 dimer interface [polypeptide binding]; other site 416344005469 substrate binding site [chemical binding]; other site 416344005470 ATP binding site [chemical binding]; other site 416344005471 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 416344005472 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 416344005473 Fe-S cluster binding site [ion binding]; other site 416344005474 active site 416344005475 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 416344005476 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344005477 Coenzyme A binding pocket [chemical binding]; other site 416344005478 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 416344005479 Glycoprotease family; Region: Peptidase_M22; pfam00814 416344005480 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 416344005481 acyl-CoA binding pocket [chemical binding]; other site 416344005482 CoA binding site [chemical binding]; other site 416344005483 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 416344005484 DEAD-like helicases superfamily; Region: DEXDc; smart00487 416344005485 ATP binding site [chemical binding]; other site 416344005486 Mg++ binding site [ion binding]; other site 416344005487 motif III; other site 416344005488 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 416344005489 nucleotide binding region [chemical binding]; other site 416344005490 ATP-binding site [chemical binding]; other site 416344005491 isocitrate lyase; Provisional; Region: PRK15063 416344005492 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 416344005493 tetramer interface [polypeptide binding]; other site 416344005494 active site 416344005495 Mg2+/Mn2+ binding site [ion binding]; other site 416344005496 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 416344005497 Ligand Binding Site [chemical binding]; other site 416344005498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344005499 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 416344005500 putative effector binding pocket; other site 416344005501 dimerization interface [polypeptide binding]; other site 416344005502 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 416344005503 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 416344005504 motif II; other site 416344005505 malate synthase A; Region: malate_syn_A; TIGR01344 416344005506 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 416344005507 active site 416344005508 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 416344005509 putative active site pocket [active] 416344005510 dimerization interface [polypeptide binding]; other site 416344005511 putative catalytic residue [active] 416344005512 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 416344005513 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416344005514 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344005515 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344005516 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344005517 Coenzyme A binding pocket [chemical binding]; other site 416344005518 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 416344005519 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 416344005520 active site 416344005521 HIGH motif; other site 416344005522 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 416344005523 active site 416344005524 KMSKS motif; other site 416344005525 hypothetical protein; Provisional; Region: PRK10279 416344005526 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 416344005527 nucleophile elbow; other site 416344005528 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 416344005529 NlpC/P60 family; Region: NLPC_P60; pfam00877 416344005530 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 416344005531 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344005532 Walker A/P-loop; other site 416344005533 ATP binding site [chemical binding]; other site 416344005534 Q-loop/lid; other site 416344005535 ABC transporter signature motif; other site 416344005536 Walker B; other site 416344005537 D-loop; other site 416344005538 H-loop/switch region; other site 416344005539 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416344005540 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344005541 Walker A/P-loop; other site 416344005542 ATP binding site [chemical binding]; other site 416344005543 Q-loop/lid; other site 416344005544 ABC transporter signature motif; other site 416344005545 Walker B; other site 416344005546 D-loop; other site 416344005547 H-loop/switch region; other site 416344005548 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416344005549 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 416344005550 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 416344005551 dimer interface [polypeptide binding]; other site 416344005552 conserved gate region; other site 416344005553 putative PBP binding loops; other site 416344005554 ABC-ATPase subunit interface; other site 416344005555 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 416344005556 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 416344005557 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 416344005558 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 416344005559 Subunit I/III interface [polypeptide binding]; other site 416344005560 Subunit III/IV interface [polypeptide binding]; other site 416344005561 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 416344005562 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 416344005563 D-pathway; other site 416344005564 Putative ubiquinol binding site [chemical binding]; other site 416344005565 Low-spin heme (heme b) binding site [chemical binding]; other site 416344005566 Putative water exit pathway; other site 416344005567 Binuclear center (heme o3/CuB) [ion binding]; other site 416344005568 K-pathway; other site 416344005569 Putative proton exit pathway; other site 416344005570 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 416344005571 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 416344005572 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 416344005573 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 416344005574 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 416344005575 galactosyl transferase GMA12/MNN10 family; Region: Glyco_transf_34; cl05288 416344005576 aspartate kinase; Reviewed; Region: PRK06635 416344005577 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 416344005578 putative nucleotide binding site [chemical binding]; other site 416344005579 putative catalytic residues [active] 416344005580 putative Mg ion binding site [ion binding]; other site 416344005581 putative aspartate binding site [chemical binding]; other site 416344005582 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 416344005583 putative allosteric regulatory site; other site 416344005584 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 416344005585 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 416344005586 Ligand Binding Site [chemical binding]; other site 416344005587 TilS substrate binding domain; Region: TilS; pfam09179 416344005588 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 416344005589 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 416344005590 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 416344005591 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416344005592 endonuclease III; Region: ENDO3c; smart00478 416344005593 minor groove reading motif; other site 416344005594 helix-hairpin-helix signature motif; other site 416344005595 substrate binding pocket [chemical binding]; other site 416344005596 active site 416344005597 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 416344005598 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 416344005599 active site 416344005600 HIGH motif; other site 416344005601 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 416344005602 KMSKS motif; other site 416344005603 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 416344005604 tRNA binding surface [nucleotide binding]; other site 416344005605 anticodon binding site; other site 416344005606 TPR repeat; Region: TPR_11; pfam13414 416344005607 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 416344005608 binding surface 416344005609 TPR motif; other site 416344005610 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 416344005611 substrate binding site [chemical binding]; other site 416344005612 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 416344005613 substrate binding site [chemical binding]; other site 416344005614 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416344005615 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 416344005616 putative active site [active] 416344005617 putative metal binding site [ion binding]; other site 416344005618 serine O-acetyltransferase; Region: cysE; TIGR01172 416344005619 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 416344005620 trimer interface [polypeptide binding]; other site 416344005621 active site 416344005622 substrate binding site [chemical binding]; other site 416344005623 CoA binding site [chemical binding]; other site 416344005624 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 416344005625 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 416344005626 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 416344005627 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 416344005628 active site 416344005629 dimerization interface [polypeptide binding]; other site 416344005630 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 416344005631 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344005632 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 416344005633 MutS domain I; Region: MutS_I; pfam01624 416344005634 MutS domain II; Region: MutS_II; pfam05188 416344005635 MutS domain III; Region: MutS_III; pfam05192 416344005636 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 416344005637 Walker A/P-loop; other site 416344005638 ATP binding site [chemical binding]; other site 416344005639 Q-loop/lid; other site 416344005640 ABC transporter signature motif; other site 416344005641 Walker B; other site 416344005642 D-loop; other site 416344005643 H-loop/switch region; other site 416344005644 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 416344005645 active site 416344005646 metal binding site [ion binding]; metal-binding site 416344005647 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 416344005648 Uncharacterized conserved protein [Function unknown]; Region: COG2850 416344005649 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 416344005650 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 416344005651 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 416344005652 dihydrodipicolinate synthase; Region: dapA; TIGR00674 416344005653 dimer interface [polypeptide binding]; other site 416344005654 active site 416344005655 catalytic residue [active] 416344005656 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 416344005657 active site 416344005658 HIGH motif; other site 416344005659 dimer interface [polypeptide binding]; other site 416344005660 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416344005661 active site 416344005662 KMSKS motif; other site 416344005663 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 416344005664 Peptidase family M50; Region: Peptidase_M50; pfam02163 416344005665 active site 416344005666 putative substrate binding region [chemical binding]; other site 416344005667 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 416344005668 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 416344005669 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 416344005670 active site 416344005671 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 416344005672 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344005673 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344005674 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 416344005675 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 416344005676 dinuclear metal binding motif [ion binding]; other site 416344005677 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 416344005678 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 416344005679 trimer interface [polypeptide binding]; other site 416344005680 putative metal binding site [ion binding]; other site 416344005681 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 416344005682 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 416344005683 dimerization interface [polypeptide binding]; other site 416344005684 domain crossover interface; other site 416344005685 redox-dependent activation switch; other site 416344005686 Septum formation initiator; Region: DivIC; cl17659 416344005687 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 416344005688 enolase; Provisional; Region: eno; PRK00077 416344005689 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 416344005690 dimer interface [polypeptide binding]; other site 416344005691 metal binding site [ion binding]; metal-binding site 416344005692 substrate binding pocket [chemical binding]; other site 416344005693 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 416344005694 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416344005695 CTP synthetase; Validated; Region: pyrG; PRK05380 416344005696 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 416344005697 Catalytic site [active] 416344005698 active site 416344005699 UTP binding site [chemical binding]; other site 416344005700 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 416344005701 active site 416344005702 putative oxyanion hole; other site 416344005703 catalytic triad [active] 416344005704 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344005705 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 416344005706 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 416344005707 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 416344005708 Competence protein; Region: Competence; pfam03772 416344005709 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 416344005710 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 416344005711 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 416344005712 active site 416344005713 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 416344005714 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416344005715 Walker A/P-loop; other site 416344005716 ATP binding site [chemical binding]; other site 416344005717 Q-loop/lid; other site 416344005718 ABC transporter signature motif; other site 416344005719 Walker B; other site 416344005720 D-loop; other site 416344005721 H-loop/switch region; other site 416344005722 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 416344005723 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416344005724 FtsX-like permease family; Region: FtsX; pfam02687 416344005725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 416344005726 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 416344005727 DHH family; Region: DHH; pfam01368 416344005728 DHHA1 domain; Region: DHHA1; pfam02272 416344005729 This domain is found in peptide chain release factors; Region: PCRF; smart00937 416344005730 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 416344005731 RF-1 domain; Region: RF-1; pfam00472 416344005732 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 416344005733 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 416344005734 dimer interface [polypeptide binding]; other site 416344005735 putative anticodon binding site; other site 416344005736 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 416344005737 motif 1; other site 416344005738 active site 416344005739 motif 2; other site 416344005740 motif 3; other site 416344005741 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 416344005742 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 416344005743 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 416344005744 catalytic loop [active] 416344005745 iron binding site [ion binding]; other site 416344005746 chaperone protein HscA; Provisional; Region: hscA; PRK05183 416344005747 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 416344005748 nucleotide binding site [chemical binding]; other site 416344005749 putative NEF/HSP70 interaction site [polypeptide binding]; other site 416344005750 SBD interface [polypeptide binding]; other site 416344005751 co-chaperone HscB; Provisional; Region: hscB; PRK03578 416344005752 DnaJ domain; Region: DnaJ; pfam00226 416344005753 HSP70 interaction site [polypeptide binding]; other site 416344005754 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 416344005755 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 416344005756 cysteine desulfurase; Provisional; Region: PRK14012 416344005757 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 416344005758 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344005759 catalytic residue [active] 416344005760 Predicted transcriptional regulator [Transcription]; Region: COG1959 416344005761 Transcriptional regulator; Region: Rrf2; cl17282 416344005762 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 416344005763 Low molecular weight phosphatase family; Region: LMWPc; cd00115 416344005764 active site 416344005765 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 416344005766 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 416344005767 4Fe-4S binding domain; Region: Fer4; pfam00037 416344005768 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 416344005769 Cysteine-rich domain; Region: CCG; pfam02754 416344005770 Cysteine-rich domain; Region: CCG; pfam02754 416344005771 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344005772 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 416344005773 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344005774 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 416344005775 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 416344005776 Phasin protein; Region: Phasin_2; pfam09361 416344005777 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 416344005778 E3 interaction surface; other site 416344005779 lipoyl attachment site [posttranslational modification]; other site 416344005780 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 416344005781 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344005782 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344005783 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416344005784 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 416344005785 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 416344005786 E3 interaction surface; other site 416344005787 lipoyl attachment site [posttranslational modification]; other site 416344005788 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 416344005789 E3 interaction surface; other site 416344005790 lipoyl attachment site [posttranslational modification]; other site 416344005791 e3 binding domain; Region: E3_binding; pfam02817 416344005792 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 416344005793 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 416344005794 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 416344005795 dimer interface [polypeptide binding]; other site 416344005796 TPP-binding site [chemical binding]; other site 416344005797 PAS domain S-box; Region: sensory_box; TIGR00229 416344005798 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 416344005799 putative active site [active] 416344005800 heme pocket [chemical binding]; other site 416344005801 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 416344005802 dimer interface [polypeptide binding]; other site 416344005803 phosphorylation site [posttranslational modification] 416344005804 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 416344005805 ATP binding site [chemical binding]; other site 416344005806 Mg2+ binding site [ion binding]; other site 416344005807 G-X-G motif; other site 416344005808 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 416344005809 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 416344005810 active site 416344005811 phosphorylation site [posttranslational modification] 416344005812 intermolecular recognition site; other site 416344005813 dimerization interface [polypeptide binding]; other site 416344005814 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 416344005815 DNA binding residues [nucleotide binding] 416344005816 dimerization interface [polypeptide binding]; other site 416344005817 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 416344005818 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 416344005819 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 416344005820 homodimer interface [polypeptide binding]; other site 416344005821 NADP binding site [chemical binding]; other site 416344005822 substrate binding site [chemical binding]; other site 416344005823 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 416344005824 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 416344005825 active site 416344005826 Zn binding site [ion binding]; other site 416344005827 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 416344005828 active site 416344005829 DNA polymerase IV; Validated; Region: PRK02406 416344005830 DNA binding site [nucleotide binding] 416344005831 aspartate racemase; Region: asp_race; TIGR00035 416344005832 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 416344005833 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 416344005834 putative catalytic site [active] 416344005835 putative phosphate binding site [ion binding]; other site 416344005836 active site 416344005837 metal binding site A [ion binding]; metal-binding site 416344005838 DNA binding site [nucleotide binding] 416344005839 putative AP binding site [nucleotide binding]; other site 416344005840 putative metal binding site B [ion binding]; other site 416344005841 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 416344005842 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 416344005843 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416344005844 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 416344005845 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 416344005846 active site 416344005847 phosphorylation site [posttranslational modification] 416344005848 intermolecular recognition site; other site 416344005849 dimerization interface [polypeptide binding]; other site 416344005850 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 416344005851 Walker A motif; other site 416344005852 ATP binding site [chemical binding]; other site 416344005853 Walker B motif; other site 416344005854 arginine finger; other site 416344005855 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344005856 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 416344005857 PAS domain; Region: PAS; smart00091 416344005858 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 416344005859 dimer interface [polypeptide binding]; other site 416344005860 phosphorylation site [posttranslational modification] 416344005861 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 416344005862 ATP binding site [chemical binding]; other site 416344005863 Mg2+ binding site [ion binding]; other site 416344005864 G-X-G motif; other site 416344005865 glutamine synthetase; Provisional; Region: glnA; PRK09469 416344005866 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 416344005867 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 416344005868 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 416344005869 active site residue [active] 416344005870 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 416344005871 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 416344005872 putative MPT binding site; other site 416344005873 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 416344005874 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 416344005875 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 416344005876 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 416344005877 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 416344005878 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 416344005879 ATP binding site [chemical binding]; other site 416344005880 putative Mg++ binding site [ion binding]; other site 416344005881 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 416344005882 nucleotide binding region [chemical binding]; other site 416344005883 ATP-binding site [chemical binding]; other site 416344005884 Helicase associated domain (HA2); Region: HA2; pfam04408 416344005885 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 416344005886 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 416344005887 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 416344005888 N-acetylglutamate synthase; Validated; Region: PRK05279 416344005889 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 416344005890 putative feedback inhibition sensing region; other site 416344005891 putative nucleotide binding site [chemical binding]; other site 416344005892 putative substrate binding site [chemical binding]; other site 416344005893 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344005894 Coenzyme A binding pocket [chemical binding]; other site 416344005895 oxidative damage protection protein; Provisional; Region: PRK05408 416344005896 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 416344005897 AAA domain; Region: AAA_23; pfam13476 416344005898 AAA domain; Region: AAA_21; pfam13304 416344005899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344005900 Walker B; other site 416344005901 D-loop; other site 416344005902 H-loop/switch region; other site 416344005903 Uncharacterized conserved protein [Function unknown]; Region: COG1479 416344005904 Protein of unknown function DUF262; Region: DUF262; pfam03235 416344005905 Protein of unknown function DUF262; Region: DUF262; pfam03235 416344005906 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 416344005907 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 416344005908 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 416344005909 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 416344005910 Peptidase C26; Region: Peptidase_C26; pfam07722 416344005911 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 416344005912 catalytic triad [active] 416344005913 N-formylglutamate amidohydrolase; Region: FGase; cl01522 416344005914 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 416344005915 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 416344005916 active site 416344005917 imidazolonepropionase; Validated; Region: PRK09356 416344005918 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 416344005919 active site 416344005920 HutD; Region: HutD; pfam05962 416344005921 urocanate hydratase; Provisional; Region: PRK05414 416344005922 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 416344005923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344005924 DNA-binding site [nucleotide binding]; DNA binding site 416344005925 UTRA domain; Region: UTRA; pfam07702 416344005926 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 416344005927 active sites [active] 416344005928 tetramer interface [polypeptide binding]; other site 416344005929 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 416344005930 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 416344005931 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 416344005932 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344005933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344005934 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 416344005935 dimerization interface [polypeptide binding]; other site 416344005936 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 416344005937 putative substrate translocation pore; other site 416344005938 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344005939 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 416344005940 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 416344005941 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344005942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344005943 Fatty acid desaturase; Region: FA_desaturase; pfam00487 416344005944 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416344005945 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 416344005946 Tellurium resistance protein; Region: Tellurium_res; pfam10138 416344005947 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 416344005948 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 416344005949 putative metal binding site [ion binding]; other site 416344005950 hypothetical protein; Provisional; Region: PRK14013 416344005951 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 416344005952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 416344005953 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344005954 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 416344005955 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344005956 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344005957 Transposase domain (DUF772); Region: DUF772; pfam05598 416344005958 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416344005959 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 416344005960 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 416344005961 PAAR motif; Region: PAAR_motif; pfam05488 416344005962 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 416344005963 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 416344005964 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 416344005965 acetyl-CoA synthetase; Provisional; Region: PRK00174 416344005966 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 416344005967 active site 416344005968 CoA binding site [chemical binding]; other site 416344005969 acyl-activating enzyme (AAE) consensus motif; other site 416344005970 AMP binding site [chemical binding]; other site 416344005971 acetate binding site [chemical binding]; other site 416344005972 EamA-like transporter family; Region: EamA; pfam00892 416344005973 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 416344005974 EamA-like transporter family; Region: EamA; pfam00892 416344005975 hypothetical protein; Provisional; Region: PRK05208 416344005976 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 416344005977 Fumarase C-terminus; Region: Fumerase_C; pfam05683 416344005978 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 416344005979 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 416344005980 heme binding site [chemical binding]; other site 416344005981 ferroxidase pore; other site 416344005982 ferroxidase diiron center [ion binding]; other site 416344005983 glutamate racemase; Provisional; Region: PRK00865 416344005984 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 416344005985 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 416344005986 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 416344005987 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 416344005988 LysR family transcriptional regulator; Provisional; Region: PRK14997 416344005989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344005990 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 416344005991 putative effector binding pocket; other site 416344005992 putative dimerization interface [polypeptide binding]; other site 416344005993 Pirin-related protein [General function prediction only]; Region: COG1741 416344005994 Pirin; Region: Pirin; pfam02678 416344005995 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 416344005996 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 416344005997 putative hydrophobic ligand binding site [chemical binding]; other site 416344005998 Hemin uptake protein hemP; Region: hemP; pfam10636 416344005999 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 416344006000 4Fe-4S binding domain; Region: Fer4_5; pfam12801 416344006001 Iron permease FTR1 family; Region: FTR1; cl00475 416344006002 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 416344006003 Fe2+ transport protein; Region: Iron_transport; pfam10634 416344006004 excinuclease ABC subunit B; Provisional; Region: PRK05298 416344006005 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 416344006006 ATP binding site [chemical binding]; other site 416344006007 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 416344006008 nucleotide binding region [chemical binding]; other site 416344006009 ATP-binding site [chemical binding]; other site 416344006010 Ultra-violet resistance protein B; Region: UvrB; pfam12344 416344006011 UvrB/uvrC motif; Region: UVR; pfam02151 416344006012 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 416344006013 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 416344006014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344006015 homodimer interface [polypeptide binding]; other site 416344006016 catalytic residue [active] 416344006017 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 416344006018 classical (c) SDRs; Region: SDR_c; cd05233 416344006019 NAD(P) binding site [chemical binding]; other site 416344006020 active site 416344006021 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 416344006022 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 416344006023 active site 416344006024 catalytic tetrad [active] 416344006025 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 416344006026 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 416344006027 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 416344006028 DNA binding residues [nucleotide binding] 416344006029 dimer interface [polypeptide binding]; other site 416344006030 copper binding site [ion binding]; other site 416344006031 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 416344006032 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344006033 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 416344006034 DNA binding residues [nucleotide binding] 416344006035 Transposase domain (DUF772); Region: DUF772; pfam05598 416344006036 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416344006037 Predicted membrane protein [Function unknown]; Region: COG3235 416344006038 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 416344006039 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 416344006040 putative active site [active] 416344006041 Zn binding site [ion binding]; other site 416344006042 hypothetical protein; Validated; Region: PRK02101 416344006043 PIN domain; Region: PIN_3; pfam13470 416344006044 methionine aminotransferase; Validated; Region: PRK09082 416344006045 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 416344006046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344006047 homodimer interface [polypeptide binding]; other site 416344006048 catalytic residue [active] 416344006049 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344006050 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 416344006051 C-terminal domain interface [polypeptide binding]; other site 416344006052 GSH binding site (G-site) [chemical binding]; other site 416344006053 dimer interface [polypeptide binding]; other site 416344006054 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 416344006055 putative N-terminal domain interface [polypeptide binding]; other site 416344006056 putative dimer interface [polypeptide binding]; other site 416344006057 putative substrate binding pocket (H-site) [chemical binding]; other site 416344006058 enoyl-CoA hydratase; Provisional; Region: PRK07511 416344006059 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 416344006060 substrate binding site [chemical binding]; other site 416344006061 oxyanion hole (OAH) forming residues; other site 416344006062 trimer interface [polypeptide binding]; other site 416344006063 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 416344006064 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 416344006065 C-terminal domain interface [polypeptide binding]; other site 416344006066 GSH binding site (G-site) [chemical binding]; other site 416344006067 dimer interface [polypeptide binding]; other site 416344006068 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 416344006069 N-terminal domain interface [polypeptide binding]; other site 416344006070 putative dimer interface [polypeptide binding]; other site 416344006071 active site 416344006072 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 416344006073 putative active site [active] 416344006074 putative catalytic site [active] 416344006075 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 416344006076 putative active site [active] 416344006077 putative catalytic site [active] 416344006078 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 416344006079 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 416344006080 active site 416344006081 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 416344006082 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 416344006083 FAD binding site [chemical binding]; other site 416344006084 substrate binding site [chemical binding]; other site 416344006085 catalytic base [active] 416344006086 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 416344006087 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 416344006088 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 416344006089 dimer interface [polypeptide binding]; other site 416344006090 ADP-ribose binding site [chemical binding]; other site 416344006091 active site 416344006092 nudix motif; other site 416344006093 metal binding site [ion binding]; metal-binding site 416344006094 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 416344006095 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 416344006096 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 416344006097 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 416344006098 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 416344006099 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 416344006100 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 416344006101 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 416344006102 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 416344006103 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 416344006104 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 416344006105 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 416344006106 4Fe-4S binding domain; Region: Fer4; pfam00037 416344006107 4Fe-4S binding domain; Region: Fer4; pfam00037 416344006108 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 416344006109 NADH dehydrogenase subunit G; Validated; Region: PRK09129 416344006110 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 416344006111 catalytic loop [active] 416344006112 iron binding site [ion binding]; other site 416344006113 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 416344006114 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 416344006115 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 416344006116 SLBB domain; Region: SLBB; pfam10531 416344006117 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 416344006118 NADH dehydrogenase subunit E; Validated; Region: PRK07539 416344006119 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 416344006120 putative dimer interface [polypeptide binding]; other site 416344006121 [2Fe-2S] cluster binding site [ion binding]; other site 416344006122 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 416344006123 NADH dehydrogenase subunit D; Validated; Region: PRK06075 416344006124 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 416344006125 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 416344006126 NADH dehydrogenase subunit B; Validated; Region: PRK06411 416344006127 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 416344006128 Preprotein translocase SecG subunit; Region: SecG; pfam03840 416344006129 triosephosphate isomerase; Provisional; Region: PRK14567 416344006130 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 416344006131 substrate binding site [chemical binding]; other site 416344006132 dimer interface [polypeptide binding]; other site 416344006133 catalytic triad [active] 416344006134 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 416344006135 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 416344006136 NAD(P) binding site [chemical binding]; other site 416344006137 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 416344006138 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 416344006139 RNase E interface [polypeptide binding]; other site 416344006140 trimer interface [polypeptide binding]; other site 416344006141 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 416344006142 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 416344006143 RNase E interface [polypeptide binding]; other site 416344006144 trimer interface [polypeptide binding]; other site 416344006145 active site 416344006146 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 416344006147 putative nucleic acid binding region [nucleotide binding]; other site 416344006148 G-X-X-G motif; other site 416344006149 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 416344006150 RNA binding site [nucleotide binding]; other site 416344006151 domain interface; other site 416344006152 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 416344006153 16S/18S rRNA binding site [nucleotide binding]; other site 416344006154 S13e-L30e interaction site [polypeptide binding]; other site 416344006155 25S rRNA binding site [nucleotide binding]; other site 416344006156 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 416344006157 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 416344006158 putative ligand binding site [chemical binding]; other site 416344006159 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 416344006160 active site clefts [active] 416344006161 zinc binding site [ion binding]; other site 416344006162 dimer interface [polypeptide binding]; other site 416344006163 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 416344006164 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 416344006165 Sulfate transporter family; Region: Sulfate_transp; pfam00916 416344006166 2-isopropylmalate synthase; Validated; Region: PRK00915 416344006167 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 416344006168 active site 416344006169 catalytic residues [active] 416344006170 metal binding site [ion binding]; metal-binding site 416344006171 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 416344006172 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 416344006173 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 416344006174 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 416344006175 ketol-acid reductoisomerase; Provisional; Region: PRK05479 416344006176 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 416344006177 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 416344006178 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 416344006179 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 416344006180 putative valine binding site [chemical binding]; other site 416344006181 dimer interface [polypeptide binding]; other site 416344006182 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 416344006183 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 416344006184 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416344006185 PYR/PP interface [polypeptide binding]; other site 416344006186 dimer interface [polypeptide binding]; other site 416344006187 TPP binding site [chemical binding]; other site 416344006188 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416344006189 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 416344006190 TPP-binding site [chemical binding]; other site 416344006191 dimer interface [polypeptide binding]; other site 416344006192 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344006193 RNA polymerase factor sigma-70; Validated; Region: PRK09047 416344006194 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 416344006195 DNA binding residues [nucleotide binding] 416344006196 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 416344006197 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 416344006198 RDD family; Region: RDD; pfam06271 416344006199 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 416344006200 putative active site [active] 416344006201 putative metal binding site [ion binding]; other site 416344006202 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344006203 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 416344006204 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 416344006205 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344006206 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344006207 Bacterial transcriptional repressor; Region: TetR; pfam13972 416344006208 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 416344006209 glucose-1-dehydrogenase; Provisional; Region: PRK06947 416344006210 classical (c) SDRs; Region: SDR_c; cd05233 416344006211 NAD(P) binding site [chemical binding]; other site 416344006212 active site 416344006213 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 416344006214 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 416344006215 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 416344006216 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 416344006217 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 416344006218 apolar tunnel; other site 416344006219 heme binding site [chemical binding]; other site 416344006220 dimerization interface [polypeptide binding]; other site 416344006221 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 416344006222 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 416344006223 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 416344006224 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 416344006225 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 416344006226 Domain of unknown function (DUF333); Region: DUF333; pfam03891 416344006227 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 416344006228 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 416344006229 active site 416344006230 phosphorylation site [posttranslational modification] 416344006231 intermolecular recognition site; other site 416344006232 dimerization interface [polypeptide binding]; other site 416344006233 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 416344006234 DNA binding site [nucleotide binding] 416344006235 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 416344006236 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 416344006237 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 416344006238 Ligand Binding Site [chemical binding]; other site 416344006239 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 416344006240 GAF domain; Region: GAF_3; pfam13492 416344006241 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 416344006242 dimer interface [polypeptide binding]; other site 416344006243 phosphorylation site [posttranslational modification] 416344006244 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 416344006245 ATP binding site [chemical binding]; other site 416344006246 Mg2+ binding site [ion binding]; other site 416344006247 G-X-G motif; other site 416344006248 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 416344006249 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 416344006250 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416344006251 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 416344006252 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 416344006253 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 416344006254 NADP binding site [chemical binding]; other site 416344006255 dimer interface [polypeptide binding]; other site 416344006256 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 416344006257 substrate binding site [chemical binding]; other site 416344006258 short chain dehydrogenase; Provisional; Region: PRK08339 416344006259 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 416344006260 putative NAD(P) binding site [chemical binding]; other site 416344006261 putative active site [active] 416344006262 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344006263 active site 416344006264 hypothetical protein; Validated; Region: PRK00110 416344006265 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 416344006266 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 416344006267 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 416344006268 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 416344006269 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 416344006270 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 416344006271 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 416344006272 active site 416344006273 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 416344006274 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 416344006275 Maf-like protein; Region: Maf; pfam02545 416344006276 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 416344006277 active site 416344006278 dimer interface [polypeptide binding]; other site 416344006279 ribonuclease G; Provisional; Region: PRK11712 416344006280 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 416344006281 homodimer interface [polypeptide binding]; other site 416344006282 oligonucleotide binding site [chemical binding]; other site 416344006283 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 416344006284 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 416344006285 YcfA-like protein; Region: YcfA; cl00752 416344006286 Protein with unknown function (DUF469); Region: DUF469; pfam04320 416344006287 PRC-barrel domain; Region: PRC; pfam05239 416344006288 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 416344006289 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344006290 putative substrate translocation pore; other site 416344006291 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 416344006292 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 416344006293 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416344006294 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 416344006295 Walker A/P-loop; other site 416344006296 ATP binding site [chemical binding]; other site 416344006297 Q-loop/lid; other site 416344006298 ABC transporter signature motif; other site 416344006299 Walker B; other site 416344006300 D-loop; other site 416344006301 H-loop/switch region; other site 416344006302 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 416344006303 putative metal binding site; other site 416344006304 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416344006305 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 416344006306 active site 416344006307 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 416344006308 O-Antigen ligase; Region: Wzy_C; pfam04932 416344006309 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 416344006310 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 416344006311 putative active site [active] 416344006312 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416344006313 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 416344006314 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 416344006315 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 416344006316 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 416344006317 putative active site [active] 416344006318 putative PHP Thumb interface [polypeptide binding]; other site 416344006319 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 416344006320 generic binding surface II; other site 416344006321 generic binding surface I; other site 416344006322 rhodanese superfamily protein; Provisional; Region: PRK05320 416344006323 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 416344006324 active site residue [active] 416344006325 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 416344006326 active site 416344006327 HIGH motif; other site 416344006328 nucleotide binding site [chemical binding]; other site 416344006329 active site 416344006330 KMSKS motif; other site 416344006331 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 416344006332 DEAD-like helicases superfamily; Region: DEXDc; smart00487 416344006333 ATP binding site [chemical binding]; other site 416344006334 Mg++ binding site [ion binding]; other site 416344006335 motif III; other site 416344006336 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 416344006337 nucleotide binding region [chemical binding]; other site 416344006338 ATP-binding site [chemical binding]; other site 416344006339 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 416344006340 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 416344006341 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 416344006342 NAD binding site [chemical binding]; other site 416344006343 ATP-grasp domain; Region: ATP-grasp; pfam02222 416344006344 META domain; Region: META; pfam03724 416344006345 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 416344006346 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 416344006347 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 416344006348 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 416344006349 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 416344006350 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 416344006351 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 416344006352 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 416344006353 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344006354 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344006355 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 416344006356 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416344006357 minor groove reading motif; other site 416344006358 helix-hairpin-helix signature motif; other site 416344006359 substrate binding pocket [chemical binding]; other site 416344006360 active site 416344006361 EamA-like transporter family; Region: EamA; pfam00892 416344006362 EamA-like transporter family; Region: EamA; pfam00892 416344006363 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 416344006364 Cytochrome c553 [Energy production and conversion]; Region: COG2863 416344006365 Cytochrome c; Region: Cytochrom_C; cl11414 416344006366 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416344006367 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 416344006368 Walker A motif; other site 416344006369 ATP binding site [chemical binding]; other site 416344006370 Walker B motif; other site 416344006371 arginine finger; other site 416344006372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 416344006373 Benzoate membrane transport protein; Region: BenE; pfam03594 416344006374 benzoate transporter; Region: benE; TIGR00843 416344006375 transaldolase-like protein; Provisional; Region: PTZ00411 416344006376 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 416344006377 active site 416344006378 dimer interface [polypeptide binding]; other site 416344006379 catalytic residue [active] 416344006380 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 416344006381 dimer interface [polypeptide binding]; other site 416344006382 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344006383 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 416344006384 Na binding site [ion binding]; other site 416344006385 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 416344006386 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 416344006387 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 416344006388 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 416344006389 putative active site [active] 416344006390 Chorismate lyase; Region: Chor_lyase; cl01230 416344006391 heat shock protein 90; Provisional; Region: PRK05218 416344006392 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 416344006393 ATP binding site [chemical binding]; other site 416344006394 Mg2+ binding site [ion binding]; other site 416344006395 G-X-G motif; other site 416344006396 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 416344006397 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344006398 DNA-binding site [nucleotide binding]; DNA binding site 416344006399 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 416344006400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344006401 homodimer interface [polypeptide binding]; other site 416344006402 catalytic residue [active] 416344006403 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 416344006404 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416344006405 EamA-like transporter family; Region: EamA; pfam00892 416344006406 EamA-like transporter family; Region: EamA; pfam00892 416344006407 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 416344006408 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 416344006409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344006410 homodimer interface [polypeptide binding]; other site 416344006411 catalytic residue [active] 416344006412 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 416344006413 homotrimer interaction site [polypeptide binding]; other site 416344006414 putative active site [active] 416344006415 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 416344006416 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 416344006417 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344006418 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344006419 metal binding site [ion binding]; metal-binding site 416344006420 active site 416344006421 I-site; other site 416344006422 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 416344006423 Chromate transporter; Region: Chromate_transp; pfam02417 416344006424 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 416344006425 Chromate transporter; Region: Chromate_transp; pfam02417 416344006426 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 416344006427 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 416344006428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344006429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344006430 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 416344006431 dimerization interface [polypeptide binding]; other site 416344006432 Predicted integral membrane protein [Function unknown]; Region: COG5615 416344006433 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 416344006434 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 416344006435 CAP-like domain; other site 416344006436 active site 416344006437 primary dimer interface [polypeptide binding]; other site 416344006438 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416344006439 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 416344006440 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 416344006441 ATP binding site [chemical binding]; other site 416344006442 Mg2+ binding site [ion binding]; other site 416344006443 G-X-G motif; other site 416344006444 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 416344006445 anchoring element; other site 416344006446 dimer interface [polypeptide binding]; other site 416344006447 ATP binding site [chemical binding]; other site 416344006448 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 416344006449 active site 416344006450 metal binding site [ion binding]; metal-binding site 416344006451 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 416344006452 ABC transporter ATPase component; Reviewed; Region: PRK11147 416344006453 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 416344006454 Walker A/P-loop; other site 416344006455 ATP binding site [chemical binding]; other site 416344006456 Q-loop/lid; other site 416344006457 ABC transporter signature motif; other site 416344006458 Walker B; other site 416344006459 D-loop; other site 416344006460 H-loop/switch region; other site 416344006461 ABC transporter; Region: ABC_tran_2; pfam12848 416344006462 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416344006463 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 416344006464 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 416344006465 Rubredoxin; Region: Rubredoxin; pfam00301 416344006466 iron binding site [ion binding]; other site 416344006467 ecotin; Provisional; Region: PRK03719 416344006468 secondary substrate binding site; other site 416344006469 primary substrate binding site; other site 416344006470 inhibition loop; other site 416344006471 dimerization interface [polypeptide binding]; other site 416344006472 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 416344006473 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344006474 putative substrate translocation pore; other site 416344006475 Predicted ATPase [General function prediction only]; Region: COG3911 416344006476 AAA domain; Region: AAA_28; pfam13521 416344006477 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 416344006478 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 416344006479 active site 416344006480 homotetramer interface [polypeptide binding]; other site 416344006481 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 416344006482 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 416344006483 Walker A/P-loop; other site 416344006484 ATP binding site [chemical binding]; other site 416344006485 Q-loop/lid; other site 416344006486 ABC transporter signature motif; other site 416344006487 Walker B; other site 416344006488 D-loop; other site 416344006489 H-loop/switch region; other site 416344006490 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 416344006491 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 416344006492 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 416344006493 dimer interface [polypeptide binding]; other site 416344006494 conserved gate region; other site 416344006495 putative PBP binding loops; other site 416344006496 ABC-ATPase subunit interface; other site 416344006497 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 416344006498 dimer interface [polypeptide binding]; other site 416344006499 conserved gate region; other site 416344006500 putative PBP binding loops; other site 416344006501 ABC-ATPase subunit interface; other site 416344006502 HAMP domain; Region: HAMP; pfam00672 416344006503 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 416344006504 dimer interface [polypeptide binding]; other site 416344006505 phosphorylation site [posttranslational modification] 416344006506 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 416344006507 ATP binding site [chemical binding]; other site 416344006508 Mg2+ binding site [ion binding]; other site 416344006509 G-X-G motif; other site 416344006510 osmolarity response regulator; Provisional; Region: ompR; PRK09468 416344006511 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 416344006512 active site 416344006513 phosphorylation site [posttranslational modification] 416344006514 intermolecular recognition site; other site 416344006515 dimerization interface [polypeptide binding]; other site 416344006516 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 416344006517 DNA binding site [nucleotide binding] 416344006518 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 416344006519 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 416344006520 substrate binding pocket [chemical binding]; other site 416344006521 membrane-bound complex binding site; other site 416344006522 hinge residues; other site 416344006523 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416344006524 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 416344006525 dimer interface [polypeptide binding]; other site 416344006526 conserved gate region; other site 416344006527 putative PBP binding loops; other site 416344006528 ABC-ATPase subunit interface; other site 416344006529 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 416344006530 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 416344006531 Walker A/P-loop; other site 416344006532 ATP binding site [chemical binding]; other site 416344006533 Q-loop/lid; other site 416344006534 ABC transporter signature motif; other site 416344006535 Walker B; other site 416344006536 D-loop; other site 416344006537 H-loop/switch region; other site 416344006538 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416344006539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344006540 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344006541 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 416344006542 putative substrate binding pocket [chemical binding]; other site 416344006543 dimerization interface [polypeptide binding]; other site 416344006544 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344006545 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 416344006546 trimer interface [polypeptide binding]; other site 416344006547 eyelet of channel; other site 416344006548 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 416344006549 Nitrogen regulatory protein P-II; Region: P-II; smart00938 416344006550 NAD synthetase; Provisional; Region: PRK13981 416344006551 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 416344006552 multimer interface [polypeptide binding]; other site 416344006553 active site 416344006554 catalytic triad [active] 416344006555 protein interface 1 [polypeptide binding]; other site 416344006556 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 416344006557 homodimer interface [polypeptide binding]; other site 416344006558 NAD binding pocket [chemical binding]; other site 416344006559 ATP binding pocket [chemical binding]; other site 416344006560 Mg binding site [ion binding]; other site 416344006561 active-site loop [active] 416344006562 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 416344006563 Protein of unknown function, DUF482; Region: DUF482; pfam04339 416344006564 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 416344006565 GIY-YIG motif/motif A; other site 416344006566 putative active site [active] 416344006567 putative metal binding site [ion binding]; other site 416344006568 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 416344006569 dimer interface [polypeptide binding]; other site 416344006570 substrate binding site [chemical binding]; other site 416344006571 metal binding sites [ion binding]; metal-binding site 416344006572 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344006573 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 416344006574 NAD(P) binding site [chemical binding]; other site 416344006575 catalytic residues [active] 416344006576 catalytic residues [active] 416344006577 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 416344006578 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 416344006579 putative NAD(P) binding site [chemical binding]; other site 416344006580 active site 416344006581 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 416344006582 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 416344006583 putative substrate translocation pore; other site 416344006584 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 416344006585 HemY protein N-terminus; Region: HemY_N; pfam07219 416344006586 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 416344006587 TPR motif; other site 416344006588 binding surface 416344006589 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 416344006590 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 416344006591 active site 416344006592 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 416344006593 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 416344006594 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 416344006595 domain interfaces; other site 416344006596 active site 416344006597 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 416344006598 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 416344006599 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 416344006600 S-adenosylmethionine binding site [chemical binding]; other site 416344006601 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 416344006602 non-specific DNA binding site [nucleotide binding]; other site 416344006603 salt bridge; other site 416344006604 sequence-specific DNA binding site [nucleotide binding]; other site 416344006605 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344006606 argininosuccinate lyase; Provisional; Region: PRK00855 416344006607 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 416344006608 active sites [active] 416344006609 tetramer interface [polypeptide binding]; other site 416344006610 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 416344006611 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 416344006612 motif II; other site 416344006613 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 416344006614 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 416344006615 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 416344006616 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 416344006617 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 416344006618 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344006619 catalytic residue [active] 416344006620 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 416344006621 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416344006622 trimer interface [polypeptide binding]; other site 416344006623 active site 416344006624 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 416344006625 E-class dimer interface [polypeptide binding]; other site 416344006626 P-class dimer interface [polypeptide binding]; other site 416344006627 active site 416344006628 Cu2+ binding site [ion binding]; other site 416344006629 Zn2+ binding site [ion binding]; other site 416344006630 Domain of unknown function DUF59; Region: DUF59; pfam01883 416344006631 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 416344006632 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 416344006633 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 416344006634 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344006635 ligand binding site [chemical binding]; other site 416344006636 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 416344006637 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 416344006638 active site 416344006639 HIGH motif; other site 416344006640 KMSKS motif; other site 416344006641 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 416344006642 tRNA binding surface [nucleotide binding]; other site 416344006643 anticodon binding site; other site 416344006644 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 416344006645 dimer interface [polypeptide binding]; other site 416344006646 putative tRNA-binding site [nucleotide binding]; other site 416344006647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 416344006648 Family of unknown function (DUF490); Region: DUF490; pfam04357 416344006649 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 416344006650 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416344006651 Surface antigen; Region: Bac_surface_Ag; pfam01103 416344006652 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 416344006653 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 416344006654 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 416344006655 tetramerization interface [polypeptide binding]; other site 416344006656 active site 416344006657 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 416344006658 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 416344006659 P-loop; other site 416344006660 Magnesium ion binding site [ion binding]; other site 416344006661 DoxX; Region: DoxX; pfam07681 416344006662 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 416344006663 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 416344006664 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 416344006665 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 416344006666 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344006667 catalytic residue [active] 416344006668 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 416344006669 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 416344006670 cobalamin binding residues [chemical binding]; other site 416344006671 putative BtuC binding residues; other site 416344006672 dimer interface [polypeptide binding]; other site 416344006673 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 416344006674 catalytic core [active] 416344006675 cobalamin synthase; Reviewed; Region: cobS; PRK00235 416344006676 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 416344006677 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 416344006678 putative dimer interface [polypeptide binding]; other site 416344006679 active site pocket [active] 416344006680 putative cataytic base [active] 416344006681 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 416344006682 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344006683 Walker A/P-loop; other site 416344006684 ATP binding site [chemical binding]; other site 416344006685 Q-loop/lid; other site 416344006686 ABC transporter signature motif; other site 416344006687 Walker B; other site 416344006688 D-loop; other site 416344006689 H-loop/switch region; other site 416344006690 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 416344006691 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 416344006692 ABC-ATPase subunit interface; other site 416344006693 dimer interface [polypeptide binding]; other site 416344006694 putative PBP binding regions; other site 416344006695 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 416344006696 Cell division protein ZapA; Region: ZapA; pfam05164 416344006697 Uncharacterized conserved protein [Function unknown]; Region: COG2947 416344006698 Protein of unknown function (DUF541); Region: SIMPL; cl01077 416344006699 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 416344006700 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 416344006701 Cytochrome c; Region: Cytochrom_C; cl11414 416344006702 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 416344006703 DNA polymerase III subunit chi; Validated; Region: PRK05728 416344006704 multifunctional aminopeptidase A; Provisional; Region: PRK00913 416344006705 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 416344006706 interface (dimer of trimers) [polypeptide binding]; other site 416344006707 Substrate-binding/catalytic site; other site 416344006708 Zn-binding sites [ion binding]; other site 416344006709 Predicted permeases [General function prediction only]; Region: COG0795 416344006710 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 416344006711 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 416344006712 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 416344006713 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 416344006714 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 416344006715 putative active site [active] 416344006716 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 416344006717 active site 416344006718 SAM binding site [chemical binding]; other site 416344006719 homodimer interface [polypeptide binding]; other site 416344006720 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 416344006721 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 416344006722 CysD dimerization site [polypeptide binding]; other site 416344006723 G1 box; other site 416344006724 putative GEF interaction site [polypeptide binding]; other site 416344006725 GTP/Mg2+ binding site [chemical binding]; other site 416344006726 Switch I region; other site 416344006727 G2 box; other site 416344006728 G3 box; other site 416344006729 Switch II region; other site 416344006730 G4 box; other site 416344006731 G5 box; other site 416344006732 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 416344006733 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 416344006734 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 416344006735 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 416344006736 Active Sites [active] 416344006737 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 416344006738 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 416344006739 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 416344006740 Active Sites [active] 416344006741 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 416344006742 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 416344006743 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 416344006744 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 416344006745 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 416344006746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344006747 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 416344006748 substrate binding site [chemical binding]; other site 416344006749 dimerization interface [polypeptide binding]; other site 416344006750 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344006751 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 416344006752 putative ligand binding site [chemical binding]; other site 416344006753 short chain dehydrogenase; Provisional; Region: PRK12937 416344006754 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 416344006755 NADP binding site [chemical binding]; other site 416344006756 homodimer interface [polypeptide binding]; other site 416344006757 active site 416344006758 substrate binding site [chemical binding]; other site 416344006759 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 416344006760 NADP binding site [chemical binding]; other site 416344006761 active site 416344006762 steroid binding site; other site 416344006763 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 416344006764 RNA binding surface [nucleotide binding]; other site 416344006765 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 416344006766 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 416344006767 active site 416344006768 uracil binding [chemical binding]; other site 416344006769 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416344006770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344006771 NAD(P) binding site [chemical binding]; other site 416344006772 active site 416344006773 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 416344006774 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 416344006775 catalytic loop [active] 416344006776 iron binding site [ion binding]; other site 416344006777 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 416344006778 FAD binding pocket [chemical binding]; other site 416344006779 FAD binding motif [chemical binding]; other site 416344006780 phosphate binding motif [ion binding]; other site 416344006781 beta-alpha-beta structure motif; other site 416344006782 NAD binding pocket [chemical binding]; other site 416344006783 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 416344006784 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 416344006785 inhibitor-cofactor binding pocket; inhibition site 416344006786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344006787 catalytic residue [active] 416344006788 putative acetyltransferase; Provisional; Region: PRK03624 416344006789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344006790 Coenzyme A binding pocket [chemical binding]; other site 416344006791 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 416344006792 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 416344006793 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 416344006794 Walker A/P-loop; other site 416344006795 ATP binding site [chemical binding]; other site 416344006796 Q-loop/lid; other site 416344006797 ABC transporter signature motif; other site 416344006798 Walker B; other site 416344006799 D-loop; other site 416344006800 H-loop/switch region; other site 416344006801 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 416344006802 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 416344006803 Walker A/P-loop; other site 416344006804 ATP binding site [chemical binding]; other site 416344006805 Q-loop/lid; other site 416344006806 ABC transporter signature motif; other site 416344006807 Walker B; other site 416344006808 D-loop; other site 416344006809 H-loop/switch region; other site 416344006810 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 416344006811 TM-ABC transporter signature motif; other site 416344006812 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344006813 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 416344006814 TM-ABC transporter signature motif; other site 416344006815 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 416344006816 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 416344006817 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 416344006818 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 416344006819 hypothetical protein; Reviewed; Region: PRK00024 416344006820 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 416344006821 MPN+ (JAMM) motif; other site 416344006822 Zinc-binding site [ion binding]; other site 416344006823 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 416344006824 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 416344006825 L-aspartate oxidase; Provisional; Region: PRK09077 416344006826 L-aspartate oxidase; Provisional; Region: PRK06175 416344006827 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 416344006828 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 416344006829 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 416344006830 dimerization interface [polypeptide binding]; other site 416344006831 active site 416344006832 quinolinate synthetase; Provisional; Region: PRK09375 416344006833 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 416344006834 Fatty acid desaturase; Region: FA_desaturase; pfam00487 416344006835 Di-iron ligands [ion binding]; other site 416344006836 Transposase; Region: DDE_Tnp_ISL3; pfam01610 416344006837 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 416344006838 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416344006839 16S rRNA methyltransferase B; Provisional; Region: PRK14901 416344006840 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 416344006841 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 416344006842 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 416344006843 active site 416344006844 substrate binding site [chemical binding]; other site 416344006845 cosubstrate binding site; other site 416344006846 catalytic site [active] 416344006847 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 416344006848 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 416344006849 active site 416344006850 Riboflavin kinase; Region: Flavokinase; smart00904 416344006851 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 416344006852 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416344006853 active site 416344006854 HIGH motif; other site 416344006855 nucleotide binding site [chemical binding]; other site 416344006856 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 416344006857 active site 416344006858 KMSKS motif; other site 416344006859 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 416344006860 tRNA binding surface [nucleotide binding]; other site 416344006861 anticodon binding site; other site 416344006862 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 416344006863 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 416344006864 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 416344006865 Flavoprotein; Region: Flavoprotein; pfam02441 416344006866 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 416344006867 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416344006868 trimer interface [polypeptide binding]; other site 416344006869 active site 416344006870 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 416344006871 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 416344006872 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 416344006873 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416344006874 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 416344006875 Clp amino terminal domain; Region: Clp_N; pfam02861 416344006876 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 416344006877 Walker A motif; other site 416344006878 ATP binding site [chemical binding]; other site 416344006879 Walker B motif; other site 416344006880 arginine finger; other site 416344006881 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 416344006882 Walker A motif; other site 416344006883 ATP binding site [chemical binding]; other site 416344006884 Walker B motif; other site 416344006885 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 416344006886 Uncharacterized conserved protein [Function unknown]; Region: COG2127 416344006887 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 416344006888 DNA-binding site [nucleotide binding]; DNA binding site 416344006889 RNA-binding motif; other site 416344006890 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 416344006891 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 416344006892 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 416344006893 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 416344006894 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 416344006895 isocitrate dehydrogenase; Validated; Region: PRK07362 416344006896 isocitrate dehydrogenase; Reviewed; Region: PRK07006 416344006897 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 416344006898 pseudouridine synthase; Region: TIGR00093 416344006899 active site 416344006900 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 416344006901 elongation factor G; Reviewed; Region: PRK00007 416344006902 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 416344006903 G1 box; other site 416344006904 putative GEF interaction site [polypeptide binding]; other site 416344006905 GTP/Mg2+ binding site [chemical binding]; other site 416344006906 Switch I region; other site 416344006907 G2 box; other site 416344006908 G3 box; other site 416344006909 Switch II region; other site 416344006910 G4 box; other site 416344006911 G5 box; other site 416344006912 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 416344006913 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 416344006914 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 416344006915 High-affinity nickel-transport protein; Region: NicO; cl00964 416344006916 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 416344006917 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416344006918 active site 416344006919 catalytic tetrad [active] 416344006920 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 416344006921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344006922 DNA-binding site [nucleotide binding]; DNA binding site 416344006923 UTRA domain; Region: UTRA; pfam07702 416344006924 CoA-transferase family III; Region: CoA_transf_3; pfam02515 416344006925 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 416344006926 CoA-transferase family III; Region: CoA_transf_3; pfam02515 416344006927 MerR family regulatory protein; Region: MerR; pfam00376 416344006928 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 416344006929 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 416344006930 dimer interface [polypeptide binding]; other site 416344006931 active site 416344006932 oxalacetate/citrate binding site [chemical binding]; other site 416344006933 citrylCoA binding site [chemical binding]; other site 416344006934 coenzyme A binding site [chemical binding]; other site 416344006935 catalytic triad [active] 416344006936 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 416344006937 putative transporter; Provisional; Region: PRK10504 416344006938 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 416344006939 putative substrate translocation pore; other site 416344006940 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 416344006941 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 416344006942 Predicted membrane protein [Function unknown]; Region: COG4539 416344006943 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 416344006944 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 416344006945 ligand binding site [chemical binding]; other site 416344006946 flexible hinge region; other site 416344006947 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 416344006948 putative switch regulator; other site 416344006949 non-specific DNA interactions [nucleotide binding]; other site 416344006950 DNA binding site [nucleotide binding] 416344006951 sequence specific DNA binding site [nucleotide binding]; other site 416344006952 putative cAMP binding site [chemical binding]; other site 416344006953 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 416344006954 Chromate transporter; Region: Chromate_transp; pfam02417 416344006955 superoxide dismutase; Provisional; Region: PRK10543 416344006956 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 416344006957 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 416344006958 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 416344006959 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 416344006960 generic binding surface II; other site 416344006961 generic binding surface I; other site 416344006962 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 416344006963 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 416344006964 Uncharacterized conserved protein [Function unknown]; Region: COG2835 416344006965 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 416344006966 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 416344006967 Ligand binding site; other site 416344006968 oligomer interface; other site 416344006969 adenylate kinase; Reviewed; Region: adk; PRK00279 416344006970 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 416344006971 AMP-binding site [chemical binding]; other site 416344006972 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 416344006973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 416344006974 Transposase; Region: DDE_Tnp_ISL3; pfam01610 416344006975 Uncharacterized conserved protein [Function unknown]; Region: COG2912 416344006976 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 416344006977 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 416344006978 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 416344006979 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 416344006980 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 416344006981 ornithine carbamoyltransferase; Provisional; Region: PRK00779 416344006982 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416344006983 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 416344006984 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 416344006985 FAD binding domain; Region: FAD_binding_4; pfam01565 416344006986 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 416344006987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 416344006988 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 416344006989 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 416344006990 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 416344006991 putative deacylase active site [active] 416344006992 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 416344006993 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416344006994 acyl-activating enzyme (AAE) consensus motif; other site 416344006995 AMP binding site [chemical binding]; other site 416344006996 active site 416344006997 CoA binding site [chemical binding]; other site 416344006998 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 416344006999 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 416344007000 active site 416344007001 Int/Topo IB signature motif; other site 416344007002 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 416344007003 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 416344007004 DNA binding site [nucleotide binding] 416344007005 active site 416344007006 epoxyqueuosine reductase; Region: TIGR00276 416344007007 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 416344007008 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 416344007009 AMIN domain; Region: AMIN; pfam11741 416344007010 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 416344007011 active site 416344007012 metal binding site [ion binding]; metal-binding site 416344007013 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 416344007014 EamA-like transporter family; Region: EamA; pfam00892 416344007015 Pirin-related protein [General function prediction only]; Region: COG1741 416344007016 Pirin; Region: Pirin; pfam02678 416344007017 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 416344007018 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 416344007019 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 416344007020 catalytic residues [active] 416344007021 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 416344007022 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 416344007023 putative ATP binding site [chemical binding]; other site 416344007024 putative substrate interface [chemical binding]; other site 416344007025 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 416344007026 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 416344007027 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 416344007028 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 416344007029 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 416344007030 S-adenosylmethionine binding site [chemical binding]; other site 416344007031 Protein of unknown function DUF72; Region: DUF72; pfam01904 416344007032 methionine sulfoxide reductase A; Provisional; Region: PRK14054 416344007033 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 416344007034 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 416344007035 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344007036 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 416344007037 putative DNA binding site [nucleotide binding]; other site 416344007038 putative Zn2+ binding site [ion binding]; other site 416344007039 AsnC family; Region: AsnC_trans_reg; pfam01037 416344007040 arylformamidase; Region: trp_arylform; TIGR03035 416344007041 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 416344007042 kynureninase; Region: kynureninase; TIGR01814 416344007043 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344007044 catalytic residue [active] 416344007045 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 416344007046 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 416344007047 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 416344007048 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 416344007049 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 416344007050 N- and C-terminal domain interface [polypeptide binding]; other site 416344007051 D-xylulose kinase; Region: XylB; TIGR01312 416344007052 active site 416344007053 MgATP binding site [chemical binding]; other site 416344007054 catalytic site [active] 416344007055 metal binding site [ion binding]; metal-binding site 416344007056 xylulose binding site [chemical binding]; other site 416344007057 homodimer interface [polypeptide binding]; other site 416344007058 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 416344007059 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 416344007060 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 416344007061 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 416344007062 Walker A/P-loop; other site 416344007063 ATP binding site [chemical binding]; other site 416344007064 Q-loop/lid; other site 416344007065 ABC transporter signature motif; other site 416344007066 Walker B; other site 416344007067 D-loop; other site 416344007068 H-loop/switch region; other site 416344007069 TOBE domain; Region: TOBE; pfam03459 416344007070 TOBE domain; Region: TOBE_2; pfam08402 416344007071 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 416344007072 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 416344007073 motif II; other site 416344007074 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 416344007075 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416344007076 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 416344007077 dimer interface [polypeptide binding]; other site 416344007078 conserved gate region; other site 416344007079 putative PBP binding loops; other site 416344007080 ABC-ATPase subunit interface; other site 416344007081 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 416344007082 dimer interface [polypeptide binding]; other site 416344007083 conserved gate region; other site 416344007084 putative PBP binding loops; other site 416344007085 ABC-ATPase subunit interface; other site 416344007086 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416344007087 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416344007088 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 416344007089 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 416344007090 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416344007091 substrate binding site [chemical binding]; other site 416344007092 ATP binding site [chemical binding]; other site 416344007093 sorbitol dehydrogenase; Provisional; Region: PRK07067 416344007094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344007095 NAD(P) binding site [chemical binding]; other site 416344007096 active site 416344007097 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 416344007098 metal binding site 2 [ion binding]; metal-binding site 416344007099 putative DNA binding helix; other site 416344007100 metal binding site 1 [ion binding]; metal-binding site 416344007101 dimer interface [polypeptide binding]; other site 416344007102 structural Zn2+ binding site [ion binding]; other site 416344007103 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 416344007104 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 416344007105 metal binding site [ion binding]; metal-binding site 416344007106 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 416344007107 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 416344007108 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 416344007109 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 416344007110 ABC-ATPase subunit interface; other site 416344007111 dimer interface [polypeptide binding]; other site 416344007112 S-formylglutathione hydrolase; Region: PLN02442 416344007113 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 416344007114 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 416344007115 nucleotide binding site [chemical binding]; other site 416344007116 xanthine permease; Region: pbuX; TIGR03173 416344007117 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 416344007118 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 416344007119 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 416344007120 Protein export membrane protein; Region: SecD_SecF; cl14618 416344007121 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 416344007122 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 416344007123 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344007124 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344007125 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 416344007126 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344007127 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 416344007128 Isochorismatase family; Region: Isochorismatase; pfam00857 416344007129 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 416344007130 catalytic triad [active] 416344007131 conserved cis-peptide bond; other site 416344007132 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 416344007133 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 416344007134 conserved cys residue [active] 416344007135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344007136 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 416344007137 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 416344007138 hydrophobic ligand binding site; other site 416344007139 Domain of unknown function (DUF427); Region: DUF427; pfam04248 416344007140 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 416344007141 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 416344007142 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 416344007143 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 416344007144 protein binding site [polypeptide binding]; other site 416344007145 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 416344007146 protein binding site [polypeptide binding]; other site 416344007147 sensor protein QseC; Provisional; Region: PRK10337 416344007148 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 416344007149 dimer interface [polypeptide binding]; other site 416344007150 phosphorylation site [posttranslational modification] 416344007151 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 416344007152 ATP binding site [chemical binding]; other site 416344007153 Mg2+ binding site [ion binding]; other site 416344007154 G-X-G motif; other site 416344007155 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 416344007156 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 416344007157 active site 416344007158 phosphorylation site [posttranslational modification] 416344007159 intermolecular recognition site; other site 416344007160 dimerization interface [polypeptide binding]; other site 416344007161 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 416344007162 DNA binding site [nucleotide binding] 416344007163 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 416344007164 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 416344007165 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 416344007166 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 416344007167 active site 416344007168 catalytic triad [active] 416344007169 oxyanion hole [active] 416344007170 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 416344007171 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 416344007172 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 416344007173 ATP-grasp domain; Region: ATP-grasp; pfam02222 416344007174 AIR carboxylase; Region: AIRC; cl00310 416344007175 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 416344007176 ATP binding site [chemical binding]; other site 416344007177 active site 416344007178 substrate binding site [chemical binding]; other site 416344007179 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 416344007180 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 416344007181 intersubunit interface [polypeptide binding]; other site 416344007182 active site 416344007183 zinc binding site [ion binding]; other site 416344007184 Na+ binding site [ion binding]; other site 416344007185 pyruvate kinase; Provisional; Region: PRK05826 416344007186 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 416344007187 domain interfaces; other site 416344007188 active site 416344007189 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 416344007190 Phosphoglycerate kinase; Region: PGK; pfam00162 416344007191 substrate binding site [chemical binding]; other site 416344007192 hinge regions; other site 416344007193 ADP binding site [chemical binding]; other site 416344007194 catalytic site [active] 416344007195 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 416344007196 AzlC protein; Region: AzlC; cl00570 416344007197 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 416344007198 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 416344007199 homodimer interface [polypeptide binding]; other site 416344007200 substrate-cofactor binding pocket; other site 416344007201 catalytic residue [active] 416344007202 Zinc-finger domain; Region: zf-CHCC; cl01821 416344007203 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416344007204 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 416344007205 putative active site [active] 416344007206 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 416344007207 SnoaL-like domain; Region: SnoaL_3; pfam13474 416344007208 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 416344007209 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 416344007210 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 416344007211 Peptidase family M48; Region: Peptidase_M48; pfam01435 416344007212 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 416344007213 trimer interface [polypeptide binding]; other site 416344007214 dimer interface [polypeptide binding]; other site 416344007215 putative active site [active] 416344007216 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 416344007217 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 416344007218 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 416344007219 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 416344007220 O-Antigen ligase; Region: Wzy_C; pfam04932 416344007221 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 416344007222 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 416344007223 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 416344007224 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 416344007225 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 416344007226 CoA binding domain; Region: CoA_binding; smart00881 416344007227 CoA-ligase; Region: Ligase_CoA; pfam00549 416344007228 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 416344007229 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 416344007230 CoA-ligase; Region: Ligase_CoA; pfam00549 416344007231 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 416344007232 recombination regulator RecX; Provisional; Region: recX; PRK14136 416344007233 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 416344007234 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 416344007235 hexamer interface [polypeptide binding]; other site 416344007236 Walker A motif; other site 416344007237 ATP binding site [chemical binding]; other site 416344007238 Walker B motif; other site 416344007239 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344007240 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 416344007241 active site 416344007242 phosphorylation site [posttranslational modification] 416344007243 intermolecular recognition site; other site 416344007244 dimerization interface [polypeptide binding]; other site 416344007245 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 416344007246 DNA binding site [nucleotide binding] 416344007247 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 416344007248 HAMP domain; Region: HAMP; pfam00672 416344007249 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 416344007250 dimer interface [polypeptide binding]; other site 416344007251 phosphorylation site [posttranslational modification] 416344007252 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 416344007253 ATP binding site [chemical binding]; other site 416344007254 Mg2+ binding site [ion binding]; other site 416344007255 G-X-G motif; other site 416344007256 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 416344007257 putative substrate translocation pore; other site 416344007258 Uncharacterized conserved protein [Function unknown]; Region: COG4715 416344007259 SWIM zinc finger; Region: SWIM; pfam04434 416344007260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344007261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344007262 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 416344007263 putative effector binding pocket; other site 416344007264 putative dimerization interface [polypeptide binding]; other site 416344007265 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344007266 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 416344007267 conserved cys residue [active] 416344007268 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344007269 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 416344007270 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 416344007271 conserved cys residue [active] 416344007272 Cupin domain; Region: Cupin_2; cl17218 416344007273 MAPEG family; Region: MAPEG; pfam01124 416344007274 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 416344007275 Transglycosylase; Region: Transgly; pfam00912 416344007276 Uncharacterized conserved protein [Function unknown]; Region: COG3791 416344007277 Transcriptional regulators [Transcription]; Region: FadR; COG2186 416344007278 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344007279 DNA-binding site [nucleotide binding]; DNA binding site 416344007280 FCD domain; Region: FCD; pfam07729 416344007281 galactonate dehydratase; Provisional; Region: PRK14017 416344007282 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 416344007283 putative active site pocket [active] 416344007284 putative metal binding site [ion binding]; other site 416344007285 Copper resistance protein D; Region: CopD; pfam05425 416344007286 Cytochrome c; Region: Cytochrom_C; cl11414 416344007287 Cytochrome c; Region: Cytochrom_C; cl11414 416344007288 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344007289 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344007290 Cytochrome c; Region: Cytochrom_C; pfam00034 416344007291 helicase 45; Provisional; Region: PTZ00424 416344007292 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 416344007293 ATP binding site [chemical binding]; other site 416344007294 Mg++ binding site [ion binding]; other site 416344007295 motif III; other site 416344007296 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 416344007297 nucleotide binding region [chemical binding]; other site 416344007298 ATP-binding site [chemical binding]; other site 416344007299 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 416344007300 dinuclear metal binding motif [ion binding]; other site 416344007301 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 416344007302 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 416344007303 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 416344007304 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 416344007305 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416344007306 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 416344007307 glycerol kinase; Provisional; Region: glpK; PRK00047 416344007308 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 416344007309 N- and C-terminal domain interface [polypeptide binding]; other site 416344007310 active site 416344007311 MgATP binding site [chemical binding]; other site 416344007312 catalytic site [active] 416344007313 metal binding site [ion binding]; metal-binding site 416344007314 glycerol binding site [chemical binding]; other site 416344007315 homotetramer interface [polypeptide binding]; other site 416344007316 homodimer interface [polypeptide binding]; other site 416344007317 FBP binding site [chemical binding]; other site 416344007318 protein IIAGlc interface [polypeptide binding]; other site 416344007319 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 416344007320 amphipathic channel; other site 416344007321 Asn-Pro-Ala signature motifs; other site 416344007322 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 416344007323 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 416344007324 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 416344007325 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 416344007326 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344007327 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 416344007328 non-specific DNA binding site [nucleotide binding]; other site 416344007329 salt bridge; other site 416344007330 sequence-specific DNA binding site [nucleotide binding]; other site 416344007331 Cupin domain; Region: Cupin_2; pfam07883 416344007332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 416344007333 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 416344007334 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 416344007335 FeS/SAM binding site; other site 416344007336 TRAM domain; Region: TRAM; pfam01938 416344007337 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 416344007338 PhoH-like protein; Region: PhoH; pfam02562 416344007339 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 416344007340 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 416344007341 putative active site pocket [active] 416344007342 dimerization interface [polypeptide binding]; other site 416344007343 putative catalytic residue [active] 416344007344 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 416344007345 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 416344007346 Transporter associated domain; Region: CorC_HlyC; smart01091 416344007347 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 416344007348 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 416344007349 putative active site [active] 416344007350 catalytic triad [active] 416344007351 putative dimer interface [polypeptide binding]; other site 416344007352 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 416344007353 binding surface 416344007354 TPR repeat; Region: TPR_11; pfam13414 416344007355 TPR motif; other site 416344007356 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 416344007357 binding surface 416344007358 TPR repeat; Region: TPR_11; pfam13414 416344007359 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 416344007360 dimer interface [polypeptide binding]; other site 416344007361 motif 1; other site 416344007362 active site 416344007363 motif 2; other site 416344007364 motif 3; other site 416344007365 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 416344007366 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 416344007367 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 416344007368 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 416344007369 active site 416344007370 motif I; other site 416344007371 motif II; other site 416344007372 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 416344007373 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 416344007374 putative acyl-acceptor binding pocket; other site 416344007375 Protein of unknown function DUF45; Region: DUF45; pfam01863 416344007376 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344007377 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 416344007378 dimer interface [polypeptide binding]; other site 416344007379 active site 416344007380 metal binding site [ion binding]; metal-binding site 416344007381 glutathione binding site [chemical binding]; other site 416344007382 EamA-like transporter family; Region: EamA; pfam00892 416344007383 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 416344007384 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 416344007385 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 416344007386 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 416344007387 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 416344007388 SurA N-terminal domain; Region: SurA_N; pfam09312 416344007389 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 416344007390 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 416344007391 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 416344007392 Organic solvent tolerance protein; Region: OstA_C; pfam04453 416344007393 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 416344007394 Phosphotransferase enzyme family; Region: APH; pfam01636 416344007395 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 416344007396 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 416344007397 Substrate binding site; other site 416344007398 metal-binding site 416344007399 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416344007400 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 416344007401 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 416344007402 Walker A/P-loop; other site 416344007403 ATP binding site [chemical binding]; other site 416344007404 Q-loop/lid; other site 416344007405 ABC transporter signature motif; other site 416344007406 Walker B; other site 416344007407 D-loop; other site 416344007408 H-loop/switch region; other site 416344007409 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 416344007410 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 416344007411 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 416344007412 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 416344007413 Fatty acid desaturase; Region: FA_desaturase; pfam00487 416344007414 putative di-iron ligands [ion binding]; other site 416344007415 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 416344007416 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 416344007417 Subunit I/III interface [polypeptide binding]; other site 416344007418 Subunit III/IV interface [polypeptide binding]; other site 416344007419 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 416344007420 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 416344007421 D-pathway; other site 416344007422 Putative ubiquinol binding site [chemical binding]; other site 416344007423 Low-spin heme (heme b) binding site [chemical binding]; other site 416344007424 Putative water exit pathway; other site 416344007425 Binuclear center (heme o3/CuB) [ion binding]; other site 416344007426 K-pathway; other site 416344007427 Putative proton exit pathway; other site 416344007428 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 416344007429 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 416344007430 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 416344007431 enoyl-CoA hydratase; Provisional; Region: PRK06688 416344007432 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 416344007433 substrate binding site [chemical binding]; other site 416344007434 oxyanion hole (OAH) forming residues; other site 416344007435 trimer interface [polypeptide binding]; other site 416344007436 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 416344007437 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 416344007438 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 416344007439 dimer interface [polypeptide binding]; other site 416344007440 active site 416344007441 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 416344007442 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 416344007443 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344007444 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 416344007445 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 416344007446 substrate binding site [chemical binding]; other site 416344007447 oxyanion hole (OAH) forming residues; other site 416344007448 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 416344007449 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 416344007450 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 416344007451 FAD binding site [chemical binding]; other site 416344007452 substrate binding site [chemical binding]; other site 416344007453 catalytic residues [active] 416344007454 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 416344007455 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344007456 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344007457 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 416344007458 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 416344007459 putative active site [active] 416344007460 catalytic site [active] 416344007461 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 416344007462 putative active site [active] 416344007463 catalytic site [active] 416344007464 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 416344007465 nudix motif; other site 416344007466 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 416344007467 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 416344007468 dimer interface [polypeptide binding]; other site 416344007469 anticodon binding site; other site 416344007470 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 416344007471 homodimer interface [polypeptide binding]; other site 416344007472 motif 1; other site 416344007473 active site 416344007474 motif 2; other site 416344007475 GAD domain; Region: GAD; pfam02938 416344007476 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 416344007477 motif 3; other site 416344007478 Uncharacterized conserved protein [Function unknown]; Region: COG2928 416344007479 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 416344007480 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 416344007481 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 416344007482 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 416344007483 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 416344007484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 416344007485 SCP-2 sterol transfer family; Region: SCP2; pfam02036 416344007486 Tim44-like domain; Region: Tim44; pfam04280 416344007487 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 416344007488 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 416344007489 S-adenosylmethionine binding site [chemical binding]; other site 416344007490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 416344007491 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 416344007492 nucleotide binding site/active site [active] 416344007493 HIT family signature motif; other site 416344007494 catalytic residue [active] 416344007495 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 416344007496 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 416344007497 FAD binding domain; Region: FAD_binding_4; pfam01565 416344007498 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 416344007499 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 416344007500 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 416344007501 Cysteine-rich domain; Region: CCG; pfam02754 416344007502 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 416344007503 threonine dehydratase; Reviewed; Region: PRK09224 416344007504 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 416344007505 tetramer interface [polypeptide binding]; other site 416344007506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344007507 catalytic residue [active] 416344007508 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 416344007509 putative Ile/Val binding site [chemical binding]; other site 416344007510 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 416344007511 putative Ile/Val binding site [chemical binding]; other site 416344007512 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 416344007513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 416344007514 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 416344007515 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 416344007516 homotrimer interaction site [polypeptide binding]; other site 416344007517 putative active site [active] 416344007518 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 416344007519 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 416344007520 active site 416344007521 putative substrate binding pocket [chemical binding]; other site 416344007522 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416344007523 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416344007524 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 416344007525 putative active site [active] 416344007526 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 416344007527 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 416344007528 dimer interface [polypeptide binding]; other site 416344007529 active site 416344007530 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416344007531 substrate binding site [chemical binding]; other site 416344007532 catalytic residue [active] 416344007533 intracellular protease, PfpI family; Region: PfpI; TIGR01382 416344007534 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 416344007535 conserved cys residue [active] 416344007536 Transcriptional regulators [Transcription]; Region: MarR; COG1846 416344007537 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 416344007538 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 416344007539 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344007540 putative substrate translocation pore; other site 416344007541 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 416344007542 EcsC protein family; Region: EcsC; pfam12787 416344007543 CHRD domain; Region: CHRD; pfam07452 416344007544 aldolase II superfamily protein; Provisional; Region: PRK07044 416344007545 intersubunit interface [polypeptide binding]; other site 416344007546 active site 416344007547 Zn2+ binding site [ion binding]; other site 416344007548 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 416344007549 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 416344007550 putative active site [active] 416344007551 catalytic site [active] 416344007552 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 416344007553 putative active site [active] 416344007554 catalytic site [active] 416344007555 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344007556 transcriptional regulator NanR; Provisional; Region: PRK03837 416344007557 DNA-binding site [nucleotide binding]; DNA binding site 416344007558 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 416344007559 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 416344007560 Cysteine-rich domain; Region: CCG; pfam02754 416344007561 Cysteine-rich domain; Region: CCG; pfam02754 416344007562 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 416344007563 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 416344007564 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 416344007565 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 416344007566 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 416344007567 L-lactate permease; Region: Lactate_perm; cl00701 416344007568 glycolate transporter; Provisional; Region: PRK09695 416344007569 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 416344007570 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416344007571 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 416344007572 Ligand binding site; other site 416344007573 Putative Catalytic site; other site 416344007574 DXD motif; other site 416344007575 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 416344007576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344007577 NAD(P) binding site [chemical binding]; other site 416344007578 active site 416344007579 acyl carrier protein; Provisional; Region: PRK09184 416344007580 Predicted membrane protein [Function unknown]; Region: COG4648 416344007581 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 416344007582 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416344007583 acyl-activating enzyme (AAE) consensus motif; other site 416344007584 AMP binding site [chemical binding]; other site 416344007585 active site 416344007586 CoA binding site [chemical binding]; other site 416344007587 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 416344007588 active site 2 [active] 416344007589 dimer interface [polypeptide binding]; other site 416344007590 active site 1 [active] 416344007591 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 416344007592 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 416344007593 Predicted exporter [General function prediction only]; Region: COG4258 416344007594 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 416344007595 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 416344007596 NodB motif; other site 416344007597 active site 416344007598 catalytic site [active] 416344007599 metal binding site [ion binding]; metal-binding site 416344007600 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 416344007601 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 416344007602 dimer interface [polypeptide binding]; other site 416344007603 active site 416344007604 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 416344007605 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 416344007606 putative active site 1 [active] 416344007607 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 416344007608 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 416344007609 NAD(P) binding site [chemical binding]; other site 416344007610 homotetramer interface [polypeptide binding]; other site 416344007611 homodimer interface [polypeptide binding]; other site 416344007612 active site 416344007613 putative acyltransferase; Provisional; Region: PRK05790 416344007614 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 416344007615 dimer interface [polypeptide binding]; other site 416344007616 active site 416344007617 Phasin protein; Region: Phasin_2; pfam09361 416344007618 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 416344007619 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 416344007620 P-loop; other site 416344007621 Magnesium ion binding site [ion binding]; other site 416344007622 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 416344007623 Magnesium ion binding site [ion binding]; other site 416344007624 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 416344007625 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 416344007626 dimer interface [polypeptide binding]; other site 416344007627 ssDNA binding site [nucleotide binding]; other site 416344007628 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416344007629 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 416344007630 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344007631 putative substrate translocation pore; other site 416344007632 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 416344007633 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 416344007634 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 416344007635 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 416344007636 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 416344007637 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 416344007638 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 416344007639 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 416344007640 putative active site [active] 416344007641 putative substrate binding site [chemical binding]; other site 416344007642 putative cosubstrate binding site; other site 416344007643 catalytic site [active] 416344007644 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 416344007645 nudix motif; other site 416344007646 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344007647 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344007648 active site 416344007649 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 416344007650 TrkA-N domain; Region: TrkA_N; pfam02254 416344007651 TrkA-C domain; Region: TrkA_C; pfam02080 416344007652 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 416344007653 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 416344007654 putative active site [active] 416344007655 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 416344007656 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 416344007657 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 416344007658 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 416344007659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 416344007660 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 416344007661 OstA-like protein; Region: OstA; pfam03968 416344007662 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 416344007663 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 416344007664 Walker A/P-loop; other site 416344007665 ATP binding site [chemical binding]; other site 416344007666 Q-loop/lid; other site 416344007667 ABC transporter signature motif; other site 416344007668 Walker B; other site 416344007669 D-loop; other site 416344007670 H-loop/switch region; other site 416344007671 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 416344007672 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 416344007673 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 416344007674 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 416344007675 30S subunit binding site; other site 416344007676 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 416344007677 active site 416344007678 phosphorylation site [posttranslational modification] 416344007679 HPr kinase/phosphorylase; Provisional; Region: PRK05428 416344007680 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 416344007681 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 416344007682 Hpr binding site; other site 416344007683 active site 416344007684 homohexamer subunit interaction site [polypeptide binding]; other site 416344007685 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 416344007686 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 416344007687 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 416344007688 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416344007689 minor groove reading motif; other site 416344007690 helix-hairpin-helix signature motif; other site 416344007691 substrate binding pocket [chemical binding]; other site 416344007692 active site 416344007693 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 416344007694 DNA binding and oxoG recognition site [nucleotide binding] 416344007695 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 416344007696 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 416344007697 DNA binding site [nucleotide binding] 416344007698 catalytic residue [active] 416344007699 H2TH interface [polypeptide binding]; other site 416344007700 putative catalytic residues [active] 416344007701 turnover-facilitating residue; other site 416344007702 intercalation triad [nucleotide binding]; other site 416344007703 8OG recognition residue [nucleotide binding]; other site 416344007704 putative reading head residues; other site 416344007705 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 416344007706 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 416344007707 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 416344007708 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 416344007709 TPR motif; other site 416344007710 binding surface 416344007711 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 416344007712 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 416344007713 binding surface 416344007714 TPR motif; other site 416344007715 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 416344007716 binding surface 416344007717 TPR motif; other site 416344007718 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 416344007719 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 416344007720 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 416344007721 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416344007722 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416344007723 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 416344007724 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 416344007725 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344007726 active site 416344007727 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 416344007728 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 416344007729 5S rRNA interface [nucleotide binding]; other site 416344007730 CTC domain interface [polypeptide binding]; other site 416344007731 L16 interface [polypeptide binding]; other site 416344007732 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 416344007733 putative active site [active] 416344007734 catalytic residue [active] 416344007735 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 416344007736 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 416344007737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344007738 homodimer interface [polypeptide binding]; other site 416344007739 catalytic residue [active] 416344007740 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 416344007741 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 416344007742 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 416344007743 active site 416344007744 (T/H)XGH motif; other site 416344007745 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 416344007746 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 416344007747 S-adenosylmethionine binding site [chemical binding]; other site 416344007748 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 416344007749 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 416344007750 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 416344007751 P loop; other site 416344007752 GTP binding site [chemical binding]; other site 416344007753 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 416344007754 maleylacetoacetate isomerase; Region: maiA; TIGR01262 416344007755 C-terminal domain interface [polypeptide binding]; other site 416344007756 GSH binding site (G-site) [chemical binding]; other site 416344007757 putative dimer interface [polypeptide binding]; other site 416344007758 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 416344007759 dimer interface [polypeptide binding]; other site 416344007760 N-terminal domain interface [polypeptide binding]; other site 416344007761 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 416344007762 glycosyl transferase family protein; Provisional; Region: PRK08136 416344007763 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 416344007764 2-isopropylmalate synthase; Validated; Region: PRK03739 416344007765 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 416344007766 active site 416344007767 catalytic residues [active] 416344007768 metal binding site [ion binding]; metal-binding site 416344007769 SnoaL-like domain; Region: SnoaL_3; pfam13474 416344007770 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 416344007771 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 416344007772 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 416344007773 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 416344007774 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 416344007775 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344007776 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 416344007777 DNA binding residues [nucleotide binding] 416344007778 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 416344007779 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 416344007780 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 416344007781 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 416344007782 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 416344007783 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 416344007784 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 416344007785 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 416344007786 active site 416344007787 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 416344007788 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 416344007789 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 416344007790 active site turn [active] 416344007791 phosphorylation site [posttranslational modification] 416344007792 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 416344007793 HPr interaction site; other site 416344007794 glycerol kinase (GK) interaction site [polypeptide binding]; other site 416344007795 active site 416344007796 phosphorylation site [posttranslational modification] 416344007797 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 416344007798 dimerization domain swap beta strand [polypeptide binding]; other site 416344007799 regulatory protein interface [polypeptide binding]; other site 416344007800 active site 416344007801 regulatory phosphorylation site [posttranslational modification]; other site 416344007802 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 416344007803 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 416344007804 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 416344007805 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 416344007806 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 416344007807 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 416344007808 dimer interface [polypeptide binding]; other site 416344007809 active site 416344007810 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 416344007811 dimer interface [polypeptide binding]; other site 416344007812 active site 416344007813 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 416344007814 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 416344007815 active site 416344007816 dimer interface [polypeptide binding]; other site 416344007817 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 416344007818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344007819 DNA-binding site [nucleotide binding]; DNA binding site 416344007820 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 416344007821 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 416344007822 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 416344007823 putative active site [active] 416344007824 putative PHP Thumb interface [polypeptide binding]; other site 416344007825 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 416344007826 generic binding surface II; other site 416344007827 generic binding surface I; other site 416344007828 DNA Polymerase Y-family; Region: PolY_like; cd03468 416344007829 active site 416344007830 DNA binding site [nucleotide binding] 416344007831 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 416344007832 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 416344007833 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 416344007834 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344007835 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344007836 dimer interface [polypeptide binding]; other site 416344007837 putative CheW interface [polypeptide binding]; other site 416344007838 YCII-related domain; Region: YCII; cl00999 416344007839 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 416344007840 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 416344007841 Cu(I) binding site [ion binding]; other site 416344007842 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 416344007843 UbiA prenyltransferase family; Region: UbiA; pfam01040 416344007844 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 416344007845 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 416344007846 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416344007847 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 416344007848 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 416344007849 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 416344007850 Subunit III/VIIa interface [polypeptide binding]; other site 416344007851 Phospholipid binding site [chemical binding]; other site 416344007852 Subunit I/III interface [polypeptide binding]; other site 416344007853 Subunit III/VIb interface [polypeptide binding]; other site 416344007854 Subunit III/VIa interface; other site 416344007855 Subunit III/Vb interface [polypeptide binding]; other site 416344007856 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 416344007857 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 416344007858 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 416344007859 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 416344007860 Subunit I/III interface [polypeptide binding]; other site 416344007861 D-pathway; other site 416344007862 Subunit I/VIIc interface [polypeptide binding]; other site 416344007863 Subunit I/IV interface [polypeptide binding]; other site 416344007864 Subunit I/II interface [polypeptide binding]; other site 416344007865 Low-spin heme (heme a) binding site [chemical binding]; other site 416344007866 Subunit I/VIIa interface [polypeptide binding]; other site 416344007867 Subunit I/VIa interface [polypeptide binding]; other site 416344007868 Dimer interface; other site 416344007869 Putative water exit pathway; other site 416344007870 Binuclear center (heme a3/CuB) [ion binding]; other site 416344007871 K-pathway; other site 416344007872 Subunit I/Vb interface [polypeptide binding]; other site 416344007873 Putative proton exit pathway; other site 416344007874 Subunit I/VIb interface; other site 416344007875 Subunit I/VIc interface [polypeptide binding]; other site 416344007876 Electron transfer pathway; other site 416344007877 Subunit I/VIIIb interface [polypeptide binding]; other site 416344007878 Subunit I/VIIb interface [polypeptide binding]; other site 416344007879 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 416344007880 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 416344007881 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 416344007882 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344007883 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 416344007884 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344007885 ligand binding site [chemical binding]; other site 416344007886 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 416344007887 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 416344007888 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 416344007889 S-adenosylmethionine binding site [chemical binding]; other site 416344007890 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 416344007891 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344007892 active site 416344007893 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 416344007894 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 416344007895 putative ADP-ribose binding site [chemical binding]; other site 416344007896 putative active site [active] 416344007897 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 416344007898 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 416344007899 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 416344007900 preprotein translocase subunit SecB; Validated; Region: PRK05751 416344007901 SecA binding site; other site 416344007902 Preprotein binding site; other site 416344007903 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 416344007904 GSH binding site [chemical binding]; other site 416344007905 catalytic residues [active] 416344007906 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 416344007907 active site residue [active] 416344007908 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 416344007909 catalytic core [active] 416344007910 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 416344007911 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 416344007912 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 416344007913 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 416344007914 protein binding site [polypeptide binding]; other site 416344007915 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 416344007916 Catalytic dyad [active] 416344007917 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 416344007918 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 416344007919 ATP binding site [chemical binding]; other site 416344007920 substrate interface [chemical binding]; other site 416344007921 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 416344007922 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 416344007923 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 416344007924 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 416344007925 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 416344007926 dimerization domain swap beta strand [polypeptide binding]; other site 416344007927 regulatory protein interface [polypeptide binding]; other site 416344007928 active site 416344007929 regulatory phosphorylation site [posttranslational modification]; other site 416344007930 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 416344007931 active pocket/dimerization site; other site 416344007932 active site 416344007933 phosphorylation site [posttranslational modification] 416344007934 glutathione synthetase; Provisional; Region: PRK05246 416344007935 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 416344007936 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 416344007937 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 416344007938 Glutamate-cysteine ligase; Region: GshA; pfam08886 416344007939 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 416344007940 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 416344007941 Nitrogen regulatory protein P-II; Region: P-II; smart00938 416344007942 Membrane fusogenic activity; Region: BMFP; pfam04380 416344007943 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 416344007944 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 416344007945 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 416344007946 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 416344007947 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344007948 catalytic residues [active] 416344007949 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 416344007950 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 416344007951 active site 416344007952 phosphorylation site [posttranslational modification] 416344007953 intermolecular recognition site; other site 416344007954 dimerization interface [polypeptide binding]; other site 416344007955 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 416344007956 Walker A motif; other site 416344007957 ATP binding site [chemical binding]; other site 416344007958 Walker B motif; other site 416344007959 arginine finger; other site 416344007960 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344007961 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 416344007962 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 416344007963 dimer interface [polypeptide binding]; other site 416344007964 phosphorylation site [posttranslational modification] 416344007965 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 416344007966 ATP binding site [chemical binding]; other site 416344007967 Mg2+ binding site [ion binding]; other site 416344007968 G-X-G motif; other site 416344007969 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 416344007970 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 416344007971 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 416344007972 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 416344007973 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 416344007974 active site 416344007975 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 416344007976 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 416344007977 FAD binding site [chemical binding]; other site 416344007978 substrate binding site [chemical binding]; other site 416344007979 catalytic base [active] 416344007980 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 416344007981 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 416344007982 substrate binding site [chemical binding]; other site 416344007983 oxyanion hole (OAH) forming residues; other site 416344007984 trimer interface [polypeptide binding]; other site 416344007985 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 416344007986 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344007987 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344007988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344007989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344007990 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 416344007991 putative effector binding pocket; other site 416344007992 dimerization interface [polypeptide binding]; other site 416344007993 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 416344007994 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 416344007995 hypothetical protein; Provisional; Region: PRK10396 416344007996 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 416344007997 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 416344007998 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 416344007999 dimer interface [polypeptide binding]; other site 416344008000 conserved gate region; other site 416344008001 putative PBP binding loops; other site 416344008002 ABC-ATPase subunit interface; other site 416344008003 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 416344008004 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 416344008005 Walker A/P-loop; other site 416344008006 ATP binding site [chemical binding]; other site 416344008007 Q-loop/lid; other site 416344008008 ABC transporter signature motif; other site 416344008009 Walker B; other site 416344008010 D-loop; other site 416344008011 H-loop/switch region; other site 416344008012 lipoyl synthase; Provisional; Region: PRK05481 416344008013 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 416344008014 FeS/SAM binding site; other site 416344008015 lipoate-protein ligase B; Provisional; Region: PRK14343 416344008016 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 416344008017 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344008018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344008019 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 416344008020 dimerization interface [polypeptide binding]; other site 416344008021 substrate binding pocket [chemical binding]; other site 416344008022 hypothetical protein; Provisional; Region: PRK02047 416344008023 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 416344008024 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 416344008025 homodimer interface [polypeptide binding]; other site 416344008026 substrate-cofactor binding pocket; other site 416344008027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344008028 catalytic residue [active] 416344008029 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 416344008030 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 416344008031 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 416344008032 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 416344008033 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 416344008034 dimer interface [polypeptide binding]; other site 416344008035 [2Fe-2S] cluster binding site [ion binding]; other site 416344008036 Protein of unknown function (DUF330); Region: DUF330; cl01135 416344008037 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 416344008038 mce related protein; Region: MCE; pfam02470 416344008039 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 416344008040 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 416344008041 Walker A/P-loop; other site 416344008042 ATP binding site [chemical binding]; other site 416344008043 Q-loop/lid; other site 416344008044 ABC transporter signature motif; other site 416344008045 Walker B; other site 416344008046 D-loop; other site 416344008047 H-loop/switch region; other site 416344008048 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 416344008049 Permease; Region: Permease; pfam02405 416344008050 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 416344008051 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 416344008052 active site 416344008053 metal binding site [ion binding]; metal-binding site 416344008054 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 416344008055 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 416344008056 biotin--protein ligase; Provisional; Region: PRK06955 416344008057 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 416344008058 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 416344008059 pantothenate kinase; Reviewed; Region: PRK13328 416344008060 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 416344008061 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 416344008062 active site 416344008063 HIGH motif; other site 416344008064 nucleotide binding site [chemical binding]; other site 416344008065 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 416344008066 dinuclear metal binding motif [ion binding]; other site 416344008067 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 416344008068 active site 416344008069 nucleophile elbow; other site 416344008070 enoyl-CoA hydratase; Provisional; Region: PRK06563 416344008071 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 416344008072 substrate binding site [chemical binding]; other site 416344008073 oxyanion hole (OAH) forming residues; other site 416344008074 trimer interface [polypeptide binding]; other site 416344008075 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 416344008076 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 416344008077 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 416344008078 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 416344008079 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344008080 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 416344008081 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 416344008082 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 416344008083 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 416344008084 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 416344008085 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 416344008086 substrate binding pocket [chemical binding]; other site 416344008087 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 416344008088 B12 binding site [chemical binding]; other site 416344008089 cobalt ligand [ion binding]; other site 416344008090 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 416344008091 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 416344008092 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 416344008093 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 416344008094 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 416344008095 active site 416344008096 HIGH motif; other site 416344008097 KMSK motif region; other site 416344008098 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 416344008099 tRNA binding surface [nucleotide binding]; other site 416344008100 anticodon binding site; other site 416344008101 Sporulation related domain; Region: SPOR; pfam05036 416344008102 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 416344008103 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 416344008104 catalytic residues [active] 416344008105 hinge region; other site 416344008106 alpha helical domain; other site 416344008107 short chain dehydrogenase; Provisional; Region: PRK07024 416344008108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344008109 NAD(P) binding site [chemical binding]; other site 416344008110 active site 416344008111 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416344008112 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 416344008113 peptide binding site [polypeptide binding]; other site 416344008114 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 416344008115 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 416344008116 active site clefts [active] 416344008117 zinc binding site [ion binding]; other site 416344008118 dimer interface [polypeptide binding]; other site 416344008119 short chain dehydrogenase; Provisional; Region: PRK06953 416344008120 short chain dehydrogenase; Provisional; Region: PRK08219 416344008121 NAD(P) binding site [chemical binding]; other site 416344008122 active site 416344008123 hypothetical protein; Provisional; Region: PRK01842 416344008124 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 416344008125 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416344008126 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 416344008127 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 416344008128 inhibitor-cofactor binding pocket; inhibition site 416344008129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344008130 catalytic residue [active] 416344008131 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 416344008132 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 416344008133 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344008134 catalytic residue [active] 416344008135 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 416344008136 AAA domain; Region: AAA_26; pfam13500 416344008137 biotin synthase; Region: bioB; TIGR00433 416344008138 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 416344008139 FeS/SAM binding site; other site 416344008140 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 416344008141 CutC family; Region: CutC; cl01218 416344008142 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 416344008143 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 416344008144 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 416344008145 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 416344008146 dimer interface [polypeptide binding]; other site 416344008147 PYR/PP interface [polypeptide binding]; other site 416344008148 TPP binding site [chemical binding]; other site 416344008149 substrate binding site [chemical binding]; other site 416344008150 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 416344008151 TPP-binding site; other site 416344008152 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 416344008153 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 416344008154 trimer interface [polypeptide binding]; other site 416344008155 active site 416344008156 substrate binding site [chemical binding]; other site 416344008157 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 416344008158 CoA binding site [chemical binding]; other site 416344008159 Inward rectifier potassium channel; Region: IRK; pfam01007 416344008160 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 416344008161 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 416344008162 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 416344008163 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 416344008164 dimer interface [polypeptide binding]; other site 416344008165 active site 416344008166 catalytic residue [active] 416344008167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344008168 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 416344008169 dimerization interface [polypeptide binding]; other site 416344008170 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 416344008171 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 416344008172 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 416344008173 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344008174 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344008175 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 416344008176 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 416344008177 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 416344008178 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 416344008179 catalytic loop [active] 416344008180 iron binding site [ion binding]; other site 416344008181 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 416344008182 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 416344008183 Phosphoesterase family; Region: Phosphoesterase; pfam04185 416344008184 Domain of unknown function (DUF756); Region: DUF756; pfam05506 416344008185 Domain of unknown function (DUF756); Region: DUF756; pfam05506 416344008186 Serine hydrolase; Region: Ser_hydrolase; pfam06821 416344008187 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344008188 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 416344008189 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344008190 putative metal binding site [ion binding]; other site 416344008191 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 416344008192 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 416344008193 putative ligand binding site [chemical binding]; other site 416344008194 NAD binding site [chemical binding]; other site 416344008195 dimerization interface [polypeptide binding]; other site 416344008196 catalytic site [active] 416344008197 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 416344008198 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 416344008199 active site 416344008200 catalytic residues [active] 416344008201 metal binding site [ion binding]; metal-binding site 416344008202 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 416344008203 putative deacylase active site [active] 416344008204 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 416344008205 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 416344008206 EamA-like transporter family; Region: EamA; pfam00892 416344008207 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344008208 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 416344008209 dimerization interface [polypeptide binding]; other site 416344008210 putative DNA binding site [nucleotide binding]; other site 416344008211 putative Zn2+ binding site [ion binding]; other site 416344008212 AsnC family; Region: AsnC_trans_reg; pfam01037 416344008213 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 416344008214 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 416344008215 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 416344008216 FMN binding site [chemical binding]; other site 416344008217 substrate binding site [chemical binding]; other site 416344008218 putative catalytic residue [active] 416344008219 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344008220 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344008221 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 416344008222 putative effector binding pocket; other site 416344008223 dimerization interface [polypeptide binding]; other site 416344008224 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344008225 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 416344008226 trimer interface [polypeptide binding]; other site 416344008227 eyelet of channel; other site 416344008228 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 416344008229 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 416344008230 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 416344008231 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 416344008232 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344008233 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344008234 metal binding site [ion binding]; metal-binding site 416344008235 active site 416344008236 I-site; other site 416344008237 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344008238 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344008239 DNA binding site [nucleotide binding] 416344008240 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 416344008241 ligand binding site [chemical binding]; other site 416344008242 dimerization interface [polypeptide binding]; other site 416344008243 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 416344008244 dimerization interface [polypeptide binding]; other site 416344008245 putative active cleft [active] 416344008246 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 416344008247 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416344008248 putative substrate binding site [chemical binding]; other site 416344008249 putative ATP binding site [chemical binding]; other site 416344008250 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 416344008251 Uncharacterized conserved protein [Function unknown]; Region: COG1565 416344008252 short chain dehydrogenase; Provisional; Region: PRK09134 416344008253 Dihydroneopterin aldolase; Region: FolB; smart00905 416344008254 active site 416344008255 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 416344008256 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 416344008257 Ligand Binding Site [chemical binding]; other site 416344008258 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 416344008259 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 416344008260 Substrate binding site; other site 416344008261 Mg++ binding site; other site 416344008262 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 416344008263 active site 416344008264 substrate binding site [chemical binding]; other site 416344008265 CoA binding site [chemical binding]; other site 416344008266 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 416344008267 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 416344008268 glutaminase active site [active] 416344008269 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 416344008270 dimer interface [polypeptide binding]; other site 416344008271 active site 416344008272 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 416344008273 dimer interface [polypeptide binding]; other site 416344008274 active site 416344008275 Iron permease FTR1 family; Region: FTR1; cl00475 416344008276 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 416344008277 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 416344008278 metal-binding site [ion binding] 416344008279 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 416344008280 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 416344008281 NAD(P) binding site [chemical binding]; other site 416344008282 catalytic residues [active] 416344008283 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 416344008284 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 416344008285 non-specific DNA binding site [nucleotide binding]; other site 416344008286 salt bridge; other site 416344008287 sequence-specific DNA binding site [nucleotide binding]; other site 416344008288 Cupin domain; Region: Cupin_2; pfam07883 416344008289 Peptidase C26; Region: Peptidase_C26; pfam07722 416344008290 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 416344008291 catalytic triad [active] 416344008292 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 416344008293 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 416344008294 putative aminotransferase; Validated; Region: PRK07480 416344008295 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 416344008296 inhibitor-cofactor binding pocket; inhibition site 416344008297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344008298 catalytic residue [active] 416344008299 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 416344008300 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416344008301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344008302 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 416344008303 Walker A/P-loop; other site 416344008304 ATP binding site [chemical binding]; other site 416344008305 Q-loop/lid; other site 416344008306 ABC transporter signature motif; other site 416344008307 Walker B; other site 416344008308 D-loop; other site 416344008309 H-loop/switch region; other site 416344008310 TOBE domain; Region: TOBE_2; pfam08402 416344008311 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 416344008312 dimer interface [polypeptide binding]; other site 416344008313 conserved gate region; other site 416344008314 putative PBP binding loops; other site 416344008315 ABC-ATPase subunit interface; other site 416344008316 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 416344008317 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 416344008318 dimer interface [polypeptide binding]; other site 416344008319 conserved gate region; other site 416344008320 putative PBP binding loops; other site 416344008321 ABC-ATPase subunit interface; other site 416344008322 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 416344008323 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344008324 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344008325 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344008326 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344008327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 416344008328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 416344008329 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 416344008330 glutathione reductase; Validated; Region: PRK06116 416344008331 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344008332 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416344008333 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344008334 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 416344008335 trimer interface [polypeptide binding]; other site 416344008336 eyelet of channel; other site 416344008337 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 416344008338 Chromate transporter; Region: Chromate_transp; pfam02417 416344008339 Chromate transporter; Region: Chromate_transp; pfam02417 416344008340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344008341 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 416344008342 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 416344008343 dimerization interface [polypeptide binding]; other site 416344008344 substrate binding pocket [chemical binding]; other site 416344008345 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 416344008346 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 416344008347 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 416344008348 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 416344008349 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 416344008350 Flagellar regulator YcgR; Region: YcgR; pfam07317 416344008351 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 416344008352 PilZ domain; Region: PilZ; pfam07238 416344008353 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 416344008354 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 416344008355 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 416344008356 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 416344008357 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 416344008358 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 416344008359 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 416344008360 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 416344008361 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 416344008362 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 416344008363 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 416344008364 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 416344008365 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 416344008366 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 416344008367 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 416344008368 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 416344008369 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 416344008370 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 416344008371 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 416344008372 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 416344008373 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 416344008374 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 416344008375 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 416344008376 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 416344008377 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 416344008378 SAF-like; Region: SAF_2; pfam13144 416344008379 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 416344008380 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 416344008381 FlgN protein; Region: FlgN; pfam05130 416344008382 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 416344008383 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 416344008384 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 416344008385 active site 416344008386 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 416344008387 sequence-specific DNA binding site [nucleotide binding]; other site 416344008388 salt bridge; other site 416344008389 Cupin domain; Region: Cupin_2; pfam07883 416344008390 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 416344008391 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 416344008392 active site 416344008393 NTP binding site [chemical binding]; other site 416344008394 metal binding triad [ion binding]; metal-binding site 416344008395 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 416344008396 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 416344008397 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344008398 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 416344008399 putative C-terminal domain interface [polypeptide binding]; other site 416344008400 putative GSH binding site (G-site) [chemical binding]; other site 416344008401 putative dimer interface [polypeptide binding]; other site 416344008402 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 416344008403 putative N-terminal domain interface [polypeptide binding]; other site 416344008404 putative dimer interface [polypeptide binding]; other site 416344008405 putative substrate binding pocket (H-site) [chemical binding]; other site 416344008406 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 416344008407 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 416344008408 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416344008409 catalytic residue [active] 416344008410 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 416344008411 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 416344008412 MarR family; Region: MarR_2; cl17246 416344008413 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344008414 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 416344008415 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 416344008416 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 416344008417 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 416344008418 putative active site [active] 416344008419 TraB family; Region: TraB; pfam01963 416344008420 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 416344008421 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344008422 Walker A/P-loop; other site 416344008423 ATP binding site [chemical binding]; other site 416344008424 Q-loop/lid; other site 416344008425 ABC transporter signature motif; other site 416344008426 Walker B; other site 416344008427 D-loop; other site 416344008428 H-loop/switch region; other site 416344008429 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 416344008430 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416344008431 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344008432 Walker A/P-loop; other site 416344008433 ATP binding site [chemical binding]; other site 416344008434 Q-loop/lid; other site 416344008435 ABC transporter signature motif; other site 416344008436 Walker B; other site 416344008437 D-loop; other site 416344008438 H-loop/switch region; other site 416344008439 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416344008440 dipeptide transporter; Provisional; Region: PRK10913 416344008441 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 416344008442 dimer interface [polypeptide binding]; other site 416344008443 conserved gate region; other site 416344008444 putative PBP binding loops; other site 416344008445 ABC-ATPase subunit interface; other site 416344008446 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416344008447 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 416344008448 dimer interface [polypeptide binding]; other site 416344008449 conserved gate region; other site 416344008450 putative PBP binding loops; other site 416344008451 ABC-ATPase subunit interface; other site 416344008452 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416344008453 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 416344008454 peptide binding site [polypeptide binding]; other site 416344008455 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 416344008456 metabolite-proton symporter; Region: 2A0106; TIGR00883 416344008457 putative substrate translocation pore; other site 416344008458 High potential iron-sulfur protein; Region: HIPIP; pfam01355 416344008459 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344008460 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416344008461 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 416344008462 ATP binding site [chemical binding]; other site 416344008463 Walker B motif; other site 416344008464 arginine finger; other site 416344008465 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 416344008466 putative FMN binding site [chemical binding]; other site 416344008467 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 416344008468 putative catalytic site [active] 416344008469 putative phosphate binding site [ion binding]; other site 416344008470 putative metal binding site [ion binding]; other site 416344008471 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 416344008472 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 416344008473 FAD binding pocket [chemical binding]; other site 416344008474 FAD binding motif [chemical binding]; other site 416344008475 phosphate binding motif [ion binding]; other site 416344008476 beta-alpha-beta structure motif; other site 416344008477 NAD binding pocket [chemical binding]; other site 416344008478 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 416344008479 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 416344008480 ATP binding site [chemical binding]; other site 416344008481 Mg2+ binding site [ion binding]; other site 416344008482 G-X-G motif; other site 416344008483 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344008484 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 416344008485 active site 416344008486 phosphorylation site [posttranslational modification] 416344008487 intermolecular recognition site; other site 416344008488 dimerization interface [polypeptide binding]; other site 416344008489 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 416344008490 DNA binding residues [nucleotide binding] 416344008491 dimerization interface [polypeptide binding]; other site 416344008492 amino acid transporter; Region: 2A0306; TIGR00909 416344008493 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 416344008494 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 416344008495 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 416344008496 XdhC Rossmann domain; Region: XdhC_C; pfam13478 416344008497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 416344008498 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 416344008499 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 416344008500 Flagellar protein FliT; Region: FliT; pfam05400 416344008501 flagellar protein FliS; Validated; Region: fliS; PRK05685 416344008502 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 416344008503 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 416344008504 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 416344008505 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 416344008506 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 416344008507 FliG C-terminal domain; Region: FliG_C; pfam01706 416344008508 flagellar assembly protein H; Validated; Region: fliH; PRK05687 416344008509 Flagellar assembly protein FliH; Region: FliH; pfam02108 416344008510 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 416344008511 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 416344008512 Walker A motif/ATP binding site; other site 416344008513 Walker B motif; other site 416344008514 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 416344008515 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 416344008516 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 416344008517 choline dehydrogenase; Validated; Region: PRK02106 416344008518 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 416344008519 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 416344008520 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 416344008521 NAD(P) binding site [chemical binding]; other site 416344008522 catalytic residues [active] 416344008523 serine/threonine protein kinase; Provisional; Region: PRK11768 416344008524 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 416344008525 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416344008526 EamA-like transporter family; Region: EamA; pfam00892 416344008527 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 416344008528 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416344008529 active site 416344008530 catalytic tetrad [active] 416344008531 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 416344008532 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 416344008533 S-adenosylmethionine synthetase; Validated; Region: PRK05250 416344008534 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 416344008535 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 416344008536 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 416344008537 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 416344008538 putative acyl-acceptor binding pocket; other site 416344008539 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 416344008540 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 416344008541 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 416344008542 Protein of unknown function, DUF484; Region: DUF484; cl17449 416344008543 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 416344008544 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 416344008545 active site 416344008546 DNA binding site [nucleotide binding] 416344008547 Int/Topo IB signature motif; other site 416344008548 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 416344008549 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 416344008550 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 416344008551 putative RNA binding site [nucleotide binding]; other site 416344008552 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 416344008553 S-adenosylmethionine binding site [chemical binding]; other site 416344008554 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 416344008555 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 416344008556 P-loop, Walker A motif; other site 416344008557 Base recognition motif; other site 416344008558 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 416344008559 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 416344008560 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 416344008561 active site 416344008562 HslU subunit interaction site [polypeptide binding]; other site 416344008563 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 416344008564 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 416344008565 Walker A motif; other site 416344008566 ATP binding site [chemical binding]; other site 416344008567 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 416344008568 Walker B motif; other site 416344008569 arginine finger; other site 416344008570 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 416344008571 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 416344008572 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 416344008573 active site 416344008574 phosphorylation site [posttranslational modification] 416344008575 intermolecular recognition site; other site 416344008576 dimerization interface [polypeptide binding]; other site 416344008577 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344008578 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344008579 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 416344008580 dimer interface [polypeptide binding]; other site 416344008581 phosphorylation site [posttranslational modification] 416344008582 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 416344008583 ATP binding site [chemical binding]; other site 416344008584 Mg2+ binding site [ion binding]; other site 416344008585 G-X-G motif; other site 416344008586 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 416344008587 feedback inhibition sensing region; other site 416344008588 homohexameric interface [polypeptide binding]; other site 416344008589 nucleotide binding site [chemical binding]; other site 416344008590 N-acetyl-L-glutamate binding site [chemical binding]; other site 416344008591 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 416344008592 division inhibitor protein; Provisional; Region: slmA; PRK09480 416344008593 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344008594 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 416344008595 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 416344008596 Autotransporter beta-domain; Region: Autotransporter; smart00869 416344008597 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 416344008598 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 416344008599 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 416344008600 muropeptide transporter; Reviewed; Region: ampG; PRK11902 416344008601 AmpG-like permease; Region: 2A0125; TIGR00901 416344008602 Peptidase family M48; Region: Peptidase_M48; cl12018 416344008603 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 416344008604 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344008605 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 416344008606 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 416344008607 putative NAD(P) binding site [chemical binding]; other site 416344008608 putative substrate binding site [chemical binding]; other site 416344008609 catalytic Zn binding site [ion binding]; other site 416344008610 structural Zn binding site [ion binding]; other site 416344008611 dimer interface [polypeptide binding]; other site 416344008612 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 416344008613 putative active site [active] 416344008614 putative catalytic site [active] 416344008615 putative DNA binding site [nucleotide binding]; other site 416344008616 putative phosphate binding site [ion binding]; other site 416344008617 metal binding site A [ion binding]; metal-binding site 416344008618 putative AP binding site [nucleotide binding]; other site 416344008619 putative metal binding site B [ion binding]; other site 416344008620 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 416344008621 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 416344008622 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 416344008623 GatB domain; Region: GatB_Yqey; smart00845 416344008624 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 416344008625 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 416344008626 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 416344008627 rod shape-determining protein MreB; Provisional; Region: PRK13927 416344008628 MreB and similar proteins; Region: MreB_like; cd10225 416344008629 nucleotide binding site [chemical binding]; other site 416344008630 Mg binding site [ion binding]; other site 416344008631 putative protofilament interaction site [polypeptide binding]; other site 416344008632 RodZ interaction site [polypeptide binding]; other site 416344008633 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 416344008634 rod shape-determining protein MreC; Region: MreC; pfam04085 416344008635 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 416344008636 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 416344008637 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416344008638 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 416344008639 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 416344008640 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 416344008641 Sel1-like repeats; Region: SEL1; smart00671 416344008642 Sel1-like repeats; Region: SEL1; smart00671 416344008643 Sel1-like repeats; Region: SEL1; smart00671 416344008644 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 416344008645 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 416344008646 active site 416344008647 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 416344008648 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 416344008649 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 416344008650 Ligand Binding Site [chemical binding]; other site 416344008651 Response regulator receiver domain; Region: Response_reg; pfam00072 416344008652 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 416344008653 active site 416344008654 phosphorylation site [posttranslational modification] 416344008655 intermolecular recognition site; other site 416344008656 dimerization interface [polypeptide binding]; other site 416344008657 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 416344008658 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 416344008659 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 416344008660 dimerization interface [polypeptide binding]; other site 416344008661 PAS domain; Region: PAS; smart00091 416344008662 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 416344008663 dimer interface [polypeptide binding]; other site 416344008664 phosphorylation site [posttranslational modification] 416344008665 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 416344008666 ATP binding site [chemical binding]; other site 416344008667 Mg2+ binding site [ion binding]; other site 416344008668 G-X-G motif; other site 416344008669 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 416344008670 16S rRNA methyltransferase B; Provisional; Region: PRK10901 416344008671 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 416344008672 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 416344008673 S-adenosylmethionine binding site [chemical binding]; other site 416344008674 M48 family peptidase; Provisional; Region: PRK03001 416344008675 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344008676 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 416344008677 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 416344008678 putative active site [active] 416344008679 substrate binding site [chemical binding]; other site 416344008680 putative cosubstrate binding site; other site 416344008681 catalytic site [active] 416344008682 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 416344008683 substrate binding site [chemical binding]; other site 416344008684 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 416344008685 active site 416344008686 catalytic residues [active] 416344008687 metal binding site [ion binding]; metal-binding site 416344008688 DNA protecting protein DprA; Region: dprA; TIGR00732 416344008689 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 416344008690 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 416344008691 catalytic residues [active] 416344008692 DNA topoisomerase III; Validated; Region: PRK08173 416344008693 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 416344008694 active site 416344008695 putative interdomain interaction site [polypeptide binding]; other site 416344008696 putative metal-binding site [ion binding]; other site 416344008697 putative nucleotide binding site [chemical binding]; other site 416344008698 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 416344008699 domain I; other site 416344008700 DNA binding groove [nucleotide binding] 416344008701 phosphate binding site [ion binding]; other site 416344008702 domain II; other site 416344008703 domain III; other site 416344008704 nucleotide binding site [chemical binding]; other site 416344008705 catalytic site [active] 416344008706 domain IV; other site 416344008707 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 416344008708 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 416344008709 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344008710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344008711 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 416344008712 putative effector binding pocket; other site 416344008713 dimerization interface [polypeptide binding]; other site 416344008714 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 416344008715 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 416344008716 dimerization interface [polypeptide binding]; other site 416344008717 NAD binding site [chemical binding]; other site 416344008718 ligand binding site [chemical binding]; other site 416344008719 catalytic site [active] 416344008720 Patatin-like phospholipase; Region: Patatin; pfam01734 416344008721 active site 416344008722 nucleophile elbow; other site 416344008723 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 416344008724 CoenzymeA binding site [chemical binding]; other site 416344008725 subunit interaction site [polypeptide binding]; other site 416344008726 PHB binding site; other site 416344008727 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 416344008728 DNA methylase; Region: N6_N4_Mtase; pfam01555 416344008729 DNA methylase; Region: N6_N4_Mtase; cl17433 416344008730 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 416344008731 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 416344008732 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 416344008733 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 416344008734 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344008735 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 416344008736 L-lactate permease; Region: Lactate_perm; cl00701 416344008737 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344008738 glutamate--cysteine ligase; Provisional; Region: PRK02107 416344008739 AlkA N-terminal domain; Region: AlkA_N; pfam06029 416344008740 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 416344008741 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416344008742 minor groove reading motif; other site 416344008743 helix-hairpin-helix signature motif; other site 416344008744 substrate binding pocket [chemical binding]; other site 416344008745 active site 416344008746 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 416344008747 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 416344008748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344008749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344008750 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 416344008751 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 416344008752 DNA binding site [nucleotide binding] 416344008753 active site 416344008754 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 416344008755 dimer interface [polypeptide binding]; other site 416344008756 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344008757 metal binding site [ion binding]; metal-binding site 416344008758 YaeQ protein; Region: YaeQ; pfam07152 416344008759 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 416344008760 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416344008761 Coenzyme A binding pocket [chemical binding]; other site 416344008762 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 416344008763 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344008764 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344008765 metal binding site [ion binding]; metal-binding site 416344008766 active site 416344008767 I-site; other site 416344008768 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 416344008769 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 416344008770 trmE is a tRNA modification GTPase; Region: trmE; cd04164 416344008771 G1 box; other site 416344008772 GTP/Mg2+ binding site [chemical binding]; other site 416344008773 Switch I region; other site 416344008774 G2 box; other site 416344008775 Switch II region; other site 416344008776 G3 box; other site 416344008777 G4 box; other site 416344008778 G5 box; other site 416344008779 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 416344008780 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 416344008781 non-specific DNA binding site [nucleotide binding]; other site 416344008782 salt bridge; other site 416344008783 sequence-specific DNA binding site [nucleotide binding]; other site 416344008784 membrane protein insertase; Provisional; Region: PRK01318 416344008785 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 416344008786 hypothetical protein; Validated; Region: PRK00041 416344008787 Ribonuclease P; Region: Ribonuclease_P; cl00457 416344008788 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 416344008789 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 416344008790 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 416344008791 rod shape-determining protein MreB; Provisional; Region: PRK13930 416344008792 MreB and similar proteins; Region: MreB_like; cd10225 416344008793 nucleotide binding site [chemical binding]; other site 416344008794 Mg binding site [ion binding]; other site 416344008795 putative protofilament interaction site [polypeptide binding]; other site 416344008796 RodZ interaction site [polypeptide binding]; other site 416344008797 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 416344008798 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 416344008799 active site 416344008800 nucleophile elbow; other site 416344008801 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416344008802 Surface antigen; Region: Bac_surface_Ag; pfam01103 416344008803 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 416344008804 dimer interface [polypeptide binding]; other site 416344008805 phosphorylation site [posttranslational modification] 416344008806 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 416344008807 ATP binding site [chemical binding]; other site 416344008808 Mg2+ binding site [ion binding]; other site 416344008809 G-X-G motif; other site 416344008810 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 416344008811 glutaminase; Provisional; Region: PRK00971 416344008812 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 416344008813 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416344008814 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 416344008815 LysE type translocator; Region: LysE; cl00565 416344008816 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 416344008817 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416344008818 DNA binding residues [nucleotide binding] 416344008819 putative dimer interface [polypeptide binding]; other site 416344008820 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 416344008821 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 416344008822 Leucine carboxyl methyltransferase; Region: LCM; cl01306 416344008823 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 416344008824 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 416344008825 D-galactonate transporter; Region: 2A0114; TIGR00893 416344008826 putative substrate translocation pore; other site 416344008827 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344008828 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344008829 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 416344008830 dimerization interface [polypeptide binding]; other site 416344008831 amidase; Provisional; Region: PRK07486 416344008832 Amidase; Region: Amidase; pfam01425 416344008833 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 416344008834 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 416344008835 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344008836 catalytic residue [active] 416344008837 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344008838 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344008839 Isochorismatase family; Region: Isochorismatase; pfam00857 416344008840 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 416344008841 catalytic triad [active] 416344008842 conserved cis-peptide bond; other site 416344008843 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 416344008844 B1 nucleotide binding pocket [chemical binding]; other site 416344008845 B2 nucleotide binding pocket [chemical binding]; other site 416344008846 CAS motifs; other site 416344008847 active site 416344008848 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 416344008849 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 416344008850 substrate binding site [chemical binding]; other site 416344008851 oxyanion hole (OAH) forming residues; other site 416344008852 trimer interface [polypeptide binding]; other site 416344008853 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 416344008854 enoyl-CoA hydratase; Provisional; Region: PRK09076 416344008855 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 416344008856 substrate binding site [chemical binding]; other site 416344008857 oxyanion hole (OAH) forming residues; other site 416344008858 trimer interface [polypeptide binding]; other site 416344008859 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416344008860 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 416344008861 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 416344008862 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 416344008863 tetrameric interface [polypeptide binding]; other site 416344008864 NAD binding site [chemical binding]; other site 416344008865 catalytic residues [active] 416344008866 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 416344008867 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 416344008868 active site 416344008869 acyl-activating enzyme (AAE) consensus motif; other site 416344008870 putative CoA binding site [chemical binding]; other site 416344008871 AMP binding site [chemical binding]; other site 416344008872 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 416344008873 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344008874 active site 416344008875 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 416344008876 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344008877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344008878 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 416344008879 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 416344008880 active site residues [active] 416344008881 dimer interface [polypeptide binding]; other site 416344008882 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 416344008883 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 416344008884 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 416344008885 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 416344008886 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 416344008887 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 416344008888 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344008889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344008890 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 416344008891 dimerization interface [polypeptide binding]; other site 416344008892 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 416344008893 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 416344008894 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 416344008895 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 416344008896 GAF domain; Region: GAF; pfam01590 416344008897 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 416344008898 Walker A motif; other site 416344008899 ATP binding site [chemical binding]; other site 416344008900 Walker B motif; other site 416344008901 arginine finger; other site 416344008902 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344008903 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 416344008904 catalytic loop [active] 416344008905 iron binding site [ion binding]; other site 416344008906 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 416344008907 CopC domain; Region: CopC; pfam04234 416344008908 Protein of unknown function (DUF461); Region: DUF461; pfam04314 416344008909 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344008910 Leucine rich repeat; Region: LRR_8; pfam13855 416344008911 Leucine rich repeat; Region: LRR_8; pfam13855 416344008912 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 416344008913 active site 416344008914 ATP binding site [chemical binding]; other site 416344008915 substrate binding site [chemical binding]; other site 416344008916 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344008917 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 416344008918 dimer interface [polypeptide binding]; other site 416344008919 phosphorylation site [posttranslational modification] 416344008920 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 416344008921 ATP binding site [chemical binding]; other site 416344008922 Mg2+ binding site [ion binding]; other site 416344008923 G-X-G motif; other site 416344008924 Response regulator receiver domain; Region: Response_reg; pfam00072 416344008925 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 416344008926 active site 416344008927 phosphorylation site [posttranslational modification] 416344008928 intermolecular recognition site; other site 416344008929 dimerization interface [polypeptide binding]; other site 416344008930 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344008931 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 416344008932 active site 416344008933 phosphorylation site [posttranslational modification] 416344008934 intermolecular recognition site; other site 416344008935 dimerization interface [polypeptide binding]; other site 416344008936 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 416344008937 DNA binding residues [nucleotide binding] 416344008938 dimerization interface [polypeptide binding]; other site 416344008939 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 416344008940 Pectate lyase; Region: Pec_lyase_C; cl01593 416344008941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344008942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344008943 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 416344008944 putative dimerization interface [polypeptide binding]; other site 416344008945 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 416344008946 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 416344008947 inhibitor-cofactor binding pocket; inhibition site 416344008948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344008949 catalytic residue [active] 416344008950 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 416344008951 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344008952 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344008953 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 416344008954 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344008955 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 416344008956 dimer interface [polypeptide binding]; other site 416344008957 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 416344008958 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 416344008959 Walker A/P-loop; other site 416344008960 ATP binding site [chemical binding]; other site 416344008961 Q-loop/lid; other site 416344008962 ABC transporter signature motif; other site 416344008963 Walker B; other site 416344008964 D-loop; other site 416344008965 H-loop/switch region; other site 416344008966 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 416344008967 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 416344008968 Walker A/P-loop; other site 416344008969 ATP binding site [chemical binding]; other site 416344008970 Q-loop/lid; other site 416344008971 ABC transporter signature motif; other site 416344008972 Walker B; other site 416344008973 D-loop; other site 416344008974 H-loop/switch region; other site 416344008975 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 416344008976 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 416344008977 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 416344008978 TM-ABC transporter signature motif; other site 416344008979 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344008980 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 416344008981 TM-ABC transporter signature motif; other site 416344008982 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344008983 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 416344008984 dimerization interface [polypeptide binding]; other site 416344008985 ligand binding site [chemical binding]; other site 416344008986 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 416344008987 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344008988 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416344008989 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416344008990 Transcriptional regulators [Transcription]; Region: FadR; COG2186 416344008991 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344008992 DNA-binding site [nucleotide binding]; DNA binding site 416344008993 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 416344008994 Amidohydrolase; Region: Amidohydro_2; pfam04909 416344008995 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 416344008996 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 416344008997 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 416344008998 putative ligand binding site [chemical binding]; other site 416344008999 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344009000 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 416344009001 TM-ABC transporter signature motif; other site 416344009002 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 416344009003 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416344009004 Walker A/P-loop; other site 416344009005 ATP binding site [chemical binding]; other site 416344009006 Q-loop/lid; other site 416344009007 ABC transporter signature motif; other site 416344009008 Walker B; other site 416344009009 D-loop; other site 416344009010 H-loop/switch region; other site 416344009011 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416344009012 short chain dehydrogenase; Provisional; Region: PRK08628 416344009013 classical (c) SDRs; Region: SDR_c; cd05233 416344009014 NAD(P) binding site [chemical binding]; other site 416344009015 active site 416344009016 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 416344009017 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 416344009018 putative active site pocket [active] 416344009019 metal binding site [ion binding]; metal-binding site 416344009020 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 416344009021 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 416344009022 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 416344009023 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 416344009024 NAD binding site [chemical binding]; other site 416344009025 homotetramer interface [polypeptide binding]; other site 416344009026 homodimer interface [polypeptide binding]; other site 416344009027 active site 416344009028 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 416344009029 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344009030 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 416344009031 Protein of unknown function (DUF971); Region: DUF971; cl01414 416344009032 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 416344009033 substrate binding pocket [chemical binding]; other site 416344009034 active site 416344009035 iron coordination sites [ion binding]; other site 416344009036 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 416344009037 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 416344009038 active site 416344009039 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 416344009040 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 416344009041 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344009042 Uncharacterized conserved protein [Function unknown]; Region: COG3246 416344009043 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 416344009044 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 416344009045 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 416344009046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009047 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 416344009048 dimerization interface [polypeptide binding]; other site 416344009049 malic enzyme; Reviewed; Region: PRK12861 416344009050 Malic enzyme, N-terminal domain; Region: malic; pfam00390 416344009051 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 416344009052 putative NAD(P) binding site [chemical binding]; other site 416344009053 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 416344009054 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 416344009055 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344009056 catalytic residue [active] 416344009057 LysR family transcriptional regulator; Provisional; Region: PRK14997 416344009058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009059 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 416344009060 putative effector binding pocket; other site 416344009061 dimerization interface [polypeptide binding]; other site 416344009062 short chain dehydrogenase; Provisional; Region: PRK06500 416344009063 classical (c) SDRs; Region: SDR_c; cd05233 416344009064 NAD(P) binding site [chemical binding]; other site 416344009065 active site 416344009066 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344009067 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 416344009068 conserved cys residue [active] 416344009069 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344009070 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 416344009071 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344009072 substrate binding pocket [chemical binding]; other site 416344009073 membrane-bound complex binding site; other site 416344009074 hinge residues; other site 416344009075 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 416344009076 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 416344009077 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344009078 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416344009079 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 416344009080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009081 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 416344009082 putative dimerization interface [polypeptide binding]; other site 416344009083 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 416344009084 enterobactin exporter EntS; Provisional; Region: PRK10489 416344009085 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344009086 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 416344009087 trimer interface [polypeptide binding]; other site 416344009088 eyelet of channel; other site 416344009089 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 416344009090 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 416344009091 choline-sulfatase; Region: chol_sulfatase; TIGR03417 416344009092 Sulfatase; Region: Sulfatase; cl17466 416344009093 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 416344009094 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 416344009095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009096 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 416344009097 dimerization interface [polypeptide binding]; other site 416344009098 substrate binding pocket [chemical binding]; other site 416344009099 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 416344009100 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 416344009101 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 416344009102 putative active site [active] 416344009103 putative substrate binding site [chemical binding]; other site 416344009104 putative cosubstrate binding site; other site 416344009105 catalytic site [active] 416344009106 Amino acid permease; Region: AA_permease_2; pfam13520 416344009107 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 416344009108 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 416344009109 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 416344009110 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 416344009111 FAD binding pocket [chemical binding]; other site 416344009112 FAD binding motif [chemical binding]; other site 416344009113 phosphate binding motif [ion binding]; other site 416344009114 beta-alpha-beta structure motif; other site 416344009115 NAD binding pocket [chemical binding]; other site 416344009116 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 416344009117 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 416344009118 catalytic loop [active] 416344009119 iron binding site [ion binding]; other site 416344009120 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 416344009121 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 416344009122 [2Fe-2S] cluster binding site [ion binding]; other site 416344009123 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 416344009124 putative alpha subunit interface [polypeptide binding]; other site 416344009125 putative active site [active] 416344009126 putative substrate binding site [chemical binding]; other site 416344009127 Fe binding site [ion binding]; other site 416344009128 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 416344009129 Electron transfer flavoprotein domain; Region: ETF; pfam01012 416344009130 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 416344009131 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 416344009132 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 416344009133 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 416344009134 4Fe-4S binding domain; Region: Fer4; cl02805 416344009135 Cysteine-rich domain; Region: CCG; pfam02754 416344009136 Cysteine-rich domain; Region: CCG; pfam02754 416344009137 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 416344009138 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 416344009139 putative active site [active] 416344009140 putative FMN binding site [chemical binding]; other site 416344009141 putative substrate binding site [chemical binding]; other site 416344009142 putative catalytic residue [active] 416344009143 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344009144 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 416344009145 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 416344009146 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 416344009147 active site 416344009148 dimer interface [polypeptide binding]; other site 416344009149 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 416344009150 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 416344009151 dimer interface [polypeptide binding]; other site 416344009152 active site 416344009153 glycine-pyridoxal phosphate binding site [chemical binding]; other site 416344009154 folate binding site [chemical binding]; other site 416344009155 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344009156 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 416344009157 conserved cys residue [active] 416344009158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344009159 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 416344009160 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416344009161 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 416344009162 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 416344009163 NAD binding site [chemical binding]; other site 416344009164 catalytic Zn binding site [ion binding]; other site 416344009165 structural Zn binding site [ion binding]; other site 416344009166 transcriptional regulator BetI; Validated; Region: PRK00767 416344009167 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344009168 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 416344009169 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 416344009170 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 416344009171 tetrameric interface [polypeptide binding]; other site 416344009172 NAD binding site [chemical binding]; other site 416344009173 catalytic residues [active] 416344009174 choline dehydrogenase; Validated; Region: PRK02106 416344009175 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 416344009176 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 416344009177 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 416344009178 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 416344009179 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 416344009180 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416344009181 Walker A/P-loop; other site 416344009182 ATP binding site [chemical binding]; other site 416344009183 Q-loop/lid; other site 416344009184 ABC transporter signature motif; other site 416344009185 Walker B; other site 416344009186 D-loop; other site 416344009187 H-loop/switch region; other site 416344009188 ABC-2 type transporter; Region: ABC2_membrane; cl17235 416344009189 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416344009190 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 416344009191 PAS fold; Region: PAS_4; pfam08448 416344009192 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344009193 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 416344009194 dimer interface [polypeptide binding]; other site 416344009195 phosphorylation site [posttranslational modification] 416344009196 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 416344009197 ATP binding site [chemical binding]; other site 416344009198 G-X-G motif; other site 416344009199 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 416344009200 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 416344009201 active site 416344009202 phosphorylation site [posttranslational modification] 416344009203 intermolecular recognition site; other site 416344009204 dimerization interface [polypeptide binding]; other site 416344009205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 416344009206 Putative esterase; Region: Esterase; pfam00756 416344009207 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 416344009208 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 416344009209 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 416344009210 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 416344009211 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 416344009212 putative ligand binding site [chemical binding]; other site 416344009213 NAD binding site [chemical binding]; other site 416344009214 catalytic site [active] 416344009215 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 416344009216 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 416344009217 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 416344009218 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 416344009219 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 416344009220 Walker A/P-loop; other site 416344009221 ATP binding site [chemical binding]; other site 416344009222 Q-loop/lid; other site 416344009223 ABC transporter signature motif; other site 416344009224 Walker B; other site 416344009225 D-loop; other site 416344009226 H-loop/switch region; other site 416344009227 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 416344009228 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 416344009229 ABC-ATPase subunit interface; other site 416344009230 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 416344009231 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 416344009232 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416344009233 catalytic residue [active] 416344009234 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 416344009235 active site 416344009236 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 416344009237 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 416344009238 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 416344009239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344009240 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 416344009241 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 416344009242 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 416344009243 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416344009244 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344009245 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 416344009246 conserved cys residue [active] 416344009247 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 416344009248 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344009249 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 416344009250 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 416344009251 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 416344009252 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344009253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009254 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 416344009255 dimerization interface [polypeptide binding]; other site 416344009256 substrate binding pocket [chemical binding]; other site 416344009257 SnoaL-like domain; Region: SnoaL_2; pfam12680 416344009258 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 416344009259 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 416344009260 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 416344009261 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344009262 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 416344009263 conserved cys residue [active] 416344009264 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 416344009265 metal binding site [ion binding]; metal-binding site 416344009266 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344009267 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 416344009268 dimer interface [polypeptide binding]; other site 416344009269 conserved gate region; other site 416344009270 putative PBP binding loops; other site 416344009271 ABC-ATPase subunit interface; other site 416344009272 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 416344009273 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 416344009274 Walker A/P-loop; other site 416344009275 ATP binding site [chemical binding]; other site 416344009276 Q-loop/lid; other site 416344009277 ABC transporter signature motif; other site 416344009278 Walker B; other site 416344009279 D-loop; other site 416344009280 H-loop/switch region; other site 416344009281 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 416344009282 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 416344009283 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 416344009284 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 416344009285 NIPSNAP; Region: NIPSNAP; pfam07978 416344009286 Predicted flavoprotein [General function prediction only]; Region: COG0431 416344009287 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344009288 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 416344009289 Haemagglutinin; Region: HIM; pfam05662 416344009290 YadA-like C-terminal region; Region: YadA; pfam03895 416344009291 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 416344009292 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344009293 ligand binding site [chemical binding]; other site 416344009294 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 416344009295 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 416344009296 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 416344009297 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 416344009298 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 416344009299 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 416344009300 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 416344009301 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 416344009302 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416344009303 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416344009304 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 416344009305 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 416344009306 carboxyltransferase (CT) interaction site; other site 416344009307 biotinylation site [posttranslational modification]; other site 416344009308 enoyl-CoA hydratase; Provisional; Region: PRK05995 416344009309 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 416344009310 substrate binding site [chemical binding]; other site 416344009311 oxyanion hole (OAH) forming residues; other site 416344009312 trimer interface [polypeptide binding]; other site 416344009313 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 416344009314 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 416344009315 isovaleryl-CoA dehydrogenase; Region: PLN02519 416344009316 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 416344009317 substrate binding site [chemical binding]; other site 416344009318 FAD binding site [chemical binding]; other site 416344009319 catalytic base [active] 416344009320 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344009321 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344009322 Transcriptional regulators [Transcription]; Region: MarR; COG1846 416344009323 MarR family; Region: MarR_2; cl17246 416344009324 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 416344009325 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 416344009326 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 416344009327 alpha subunit interface [polypeptide binding]; other site 416344009328 active site 416344009329 substrate binding site [chemical binding]; other site 416344009330 Fe binding site [ion binding]; other site 416344009331 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 416344009332 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 416344009333 FMN-binding pocket [chemical binding]; other site 416344009334 flavin binding motif; other site 416344009335 phosphate binding motif [ion binding]; other site 416344009336 beta-alpha-beta structure motif; other site 416344009337 NAD binding pocket [chemical binding]; other site 416344009338 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 416344009339 catalytic loop [active] 416344009340 iron binding site [ion binding]; other site 416344009341 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 416344009342 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 416344009343 N-terminal plug; other site 416344009344 ligand-binding site [chemical binding]; other site 416344009345 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 416344009346 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 416344009347 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416344009348 active site 416344009349 metal binding site [ion binding]; metal-binding site 416344009350 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344009351 TAP-like protein; Region: Abhydrolase_4; pfam08386 416344009352 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 416344009353 Kelch domain; Region: Kelch; smart00612 416344009354 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 416344009355 Galactose oxidase, central domain; Region: Kelch_3; cl02701 416344009356 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 416344009357 Kelch domain; Region: Kelch; smart00612 416344009358 Kelch domain; Region: Kelch; smart00612 416344009359 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 416344009360 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 416344009361 active site 416344009362 HIGH motif; other site 416344009363 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416344009364 active site 416344009365 KMSKS motif; other site 416344009366 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 416344009367 tRNA binding surface [nucleotide binding]; other site 416344009368 anticodon binding site; other site 416344009369 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 416344009370 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 416344009371 DNA binding residues [nucleotide binding] 416344009372 dimer interface [polypeptide binding]; other site 416344009373 metal binding site [ion binding]; metal-binding site 416344009374 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 416344009375 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344009376 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344009377 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 416344009378 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 416344009379 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 416344009380 dimerization interface [polypeptide binding]; other site 416344009381 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 416344009382 dimer interface [polypeptide binding]; other site 416344009383 phosphorylation site [posttranslational modification] 416344009384 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 416344009385 ATP binding site [chemical binding]; other site 416344009386 Mg2+ binding site [ion binding]; other site 416344009387 G-X-G motif; other site 416344009388 osmolarity response regulator; Provisional; Region: ompR; PRK09468 416344009389 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 416344009390 active site 416344009391 phosphorylation site [posttranslational modification] 416344009392 intermolecular recognition site; other site 416344009393 dimerization interface [polypeptide binding]; other site 416344009394 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 416344009395 DNA binding site [nucleotide binding] 416344009396 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 416344009397 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344009398 catalytic residues [active] 416344009399 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 416344009400 Transglycosylase; Region: Transgly; pfam00912 416344009401 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 416344009402 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 416344009403 benzoate transport; Region: 2A0115; TIGR00895 416344009404 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 416344009405 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 416344009406 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 416344009407 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 416344009408 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416344009409 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 416344009410 aldehyde dehydrogenase family 7 member; Region: PLN02315 416344009411 tetrameric interface [polypeptide binding]; other site 416344009412 NAD binding site [chemical binding]; other site 416344009413 catalytic residues [active] 416344009414 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344009415 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344009416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344009417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344009418 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 416344009419 putative active site [active] 416344009420 catalytic site [active] 416344009421 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 416344009422 PLD-like domain; Region: PLDc_2; pfam13091 416344009423 putative active site [active] 416344009424 catalytic site [active] 416344009425 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 416344009426 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 416344009427 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416344009428 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 416344009429 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 416344009430 homodimer interface [polypeptide binding]; other site 416344009431 NAD binding pocket [chemical binding]; other site 416344009432 ATP binding pocket [chemical binding]; other site 416344009433 Mg binding site [ion binding]; other site 416344009434 active-site loop [active] 416344009435 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 416344009436 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 416344009437 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 416344009438 peptidase domain interface [polypeptide binding]; other site 416344009439 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 416344009440 active site 416344009441 catalytic triad [active] 416344009442 calcium binding site [ion binding]; other site 416344009443 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344009444 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344009445 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 416344009446 putative DNA binding site [nucleotide binding]; other site 416344009447 putative Zn2+ binding site [ion binding]; other site 416344009448 AsnC family; Region: AsnC_trans_reg; pfam01037 416344009449 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344009450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009451 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 416344009452 dimerization interface [polypeptide binding]; other site 416344009453 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 416344009454 agmatinase; Region: agmatinase; TIGR01230 416344009455 oligomer interface [polypeptide binding]; other site 416344009456 putative active site [active] 416344009457 Mn binding site [ion binding]; other site 416344009458 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 416344009459 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 416344009460 THF binding site; other site 416344009461 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 416344009462 substrate binding site [chemical binding]; other site 416344009463 THF binding site; other site 416344009464 zinc-binding site [ion binding]; other site 416344009465 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 416344009466 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009467 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 416344009468 putative dimerization interface [polypeptide binding]; other site 416344009469 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 416344009470 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 416344009471 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 416344009472 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 416344009473 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344009474 putative substrate translocation pore; other site 416344009475 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 416344009476 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 416344009477 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 416344009478 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 416344009479 NAD(P) binding site [chemical binding]; other site 416344009480 catalytic residues [active] 416344009481 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 416344009482 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 416344009483 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 416344009484 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 416344009485 conserved gate region; other site 416344009486 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 416344009487 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 416344009488 dimer interface [polypeptide binding]; other site 416344009489 conserved gate region; other site 416344009490 putative PBP binding loops; other site 416344009491 ABC-ATPase subunit interface; other site 416344009492 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 416344009493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344009494 Walker A/P-loop; other site 416344009495 ATP binding site [chemical binding]; other site 416344009496 Q-loop/lid; other site 416344009497 ABC transporter signature motif; other site 416344009498 Walker B; other site 416344009499 D-loop; other site 416344009500 H-loop/switch region; other site 416344009501 TOBE domain; Region: TOBE_2; pfam08402 416344009502 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 416344009503 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416344009504 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 416344009505 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344009506 catalytic residue [active] 416344009507 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 416344009508 D-galactonate transporter; Region: 2A0114; TIGR00893 416344009509 putative substrate translocation pore; other site 416344009510 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 416344009511 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 416344009512 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 416344009513 shikimate binding site; other site 416344009514 NAD(P) binding site [chemical binding]; other site 416344009515 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 416344009516 Dehydroquinase class II; Region: DHquinase_II; pfam01220 416344009517 active site 416344009518 trimer interface [polypeptide binding]; other site 416344009519 dimer interface [polypeptide binding]; other site 416344009520 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 416344009521 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 416344009522 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 416344009523 dimer interface [polypeptide binding]; other site 416344009524 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 416344009525 active site 416344009526 Fe binding site [ion binding]; other site 416344009527 SPRY-associated domain; Region: PRY; cl02686 416344009528 PAS fold; Region: PAS_4; pfam08448 416344009529 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 416344009530 putative active site [active] 416344009531 heme pocket [chemical binding]; other site 416344009532 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416344009533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344009534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344009535 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344009536 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 416344009537 dimerization interface [polypeptide binding]; other site 416344009538 ligand binding site [chemical binding]; other site 416344009539 metabolite-proton symporter; Region: 2A0106; TIGR00883 416344009540 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 416344009541 putative substrate translocation pore; other site 416344009542 Predicted membrane protein [Function unknown]; Region: COG2259 416344009543 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 416344009544 galactarate dehydratase; Region: galactar-dH20; TIGR03248 416344009545 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 416344009546 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 416344009547 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 416344009548 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 416344009549 putative active site [active] 416344009550 catalytic residue [active] 416344009551 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 416344009552 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 416344009553 dimer interface [polypeptide binding]; other site 416344009554 NADP binding site [chemical binding]; other site 416344009555 catalytic residues [active] 416344009556 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 416344009557 D-galactonate transporter; Region: 2A0114; TIGR00893 416344009558 putative substrate translocation pore; other site 416344009559 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 416344009560 non-specific DNA binding site [nucleotide binding]; other site 416344009561 salt bridge; other site 416344009562 sequence-specific DNA binding site [nucleotide binding]; other site 416344009563 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 416344009564 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 416344009565 Flavin binding site [chemical binding]; other site 416344009566 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 416344009567 conserved gate region; other site 416344009568 dimer interface [polypeptide binding]; other site 416344009569 ABC-ATPase subunit interface; other site 416344009570 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 416344009571 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 416344009572 Walker A/P-loop; other site 416344009573 ATP binding site [chemical binding]; other site 416344009574 Q-loop/lid; other site 416344009575 ABC transporter signature motif; other site 416344009576 Walker B; other site 416344009577 D-loop; other site 416344009578 H-loop/switch region; other site 416344009579 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 416344009580 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 416344009581 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 416344009582 active site 416344009583 non-prolyl cis peptide bond; other site 416344009584 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 416344009585 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 416344009586 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 416344009587 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 416344009588 dimer interface [polypeptide binding]; other site 416344009589 phosphorylation site [posttranslational modification] 416344009590 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 416344009591 ATP binding site [chemical binding]; other site 416344009592 Mg2+ binding site [ion binding]; other site 416344009593 G-X-G motif; other site 416344009594 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 416344009595 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 416344009596 active site 416344009597 phosphorylation site [posttranslational modification] 416344009598 intermolecular recognition site; other site 416344009599 dimerization interface [polypeptide binding]; other site 416344009600 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 416344009601 Walker A motif; other site 416344009602 ATP binding site [chemical binding]; other site 416344009603 Walker B motif; other site 416344009604 arginine finger; other site 416344009605 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344009606 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 416344009607 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344009608 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 416344009609 catalytic site [active] 416344009610 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344009611 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 416344009612 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 416344009613 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344009614 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344009615 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 416344009616 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 416344009617 substrate binding pocket [chemical binding]; other site 416344009618 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416344009619 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344009620 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009621 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 416344009622 putative effector binding pocket; other site 416344009623 putative dimerization interface [polypeptide binding]; other site 416344009624 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344009625 Purine nucleoside permease (NUP); Region: NUP; pfam06516 416344009626 LysE type translocator; Region: LysE; cl00565 416344009627 selenophosphate synthetase; Provisional; Region: PRK00943 416344009628 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 416344009629 dimerization interface [polypeptide binding]; other site 416344009630 putative ATP binding site [chemical binding]; other site 416344009631 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 416344009632 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344009633 DNA-binding site [nucleotide binding]; DNA binding site 416344009634 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 416344009635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344009636 homodimer interface [polypeptide binding]; other site 416344009637 catalytic residue [active] 416344009638 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 416344009639 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 416344009640 inhibitor-cofactor binding pocket; inhibition site 416344009641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344009642 catalytic residue [active] 416344009643 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 416344009644 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 416344009645 tetramerization interface [polypeptide binding]; other site 416344009646 NAD(P) binding site [chemical binding]; other site 416344009647 catalytic residues [active] 416344009648 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 416344009649 PAS domain; Region: PAS_9; pfam13426 416344009650 putative active site [active] 416344009651 heme pocket [chemical binding]; other site 416344009652 HAMP domain; Region: HAMP; pfam00672 416344009653 dimerization interface [polypeptide binding]; other site 416344009654 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344009655 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344009656 dimer interface [polypeptide binding]; other site 416344009657 putative CheW interface [polypeptide binding]; other site 416344009658 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 416344009659 PAS domain; Region: PAS_9; pfam13426 416344009660 putative active site [active] 416344009661 heme pocket [chemical binding]; other site 416344009662 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344009663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344009664 dimer interface [polypeptide binding]; other site 416344009665 putative CheW interface [polypeptide binding]; other site 416344009666 Uncharacterized conserved protein [Function unknown]; Region: COG1683 416344009667 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 416344009668 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 416344009669 dimer interface [polypeptide binding]; other site 416344009670 active site 416344009671 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 416344009672 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 416344009673 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344009674 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 416344009675 metabolite-proton symporter; Region: 2A0106; TIGR00883 416344009676 putative substrate translocation pore; other site 416344009677 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416344009678 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 416344009679 metal binding site [ion binding]; metal-binding site 416344009680 putative dimer interface [polypeptide binding]; other site 416344009681 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 416344009682 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 416344009683 short chain dehydrogenase; Provisional; Region: PRK06180 416344009684 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 416344009685 NADP binding site [chemical binding]; other site 416344009686 active site 416344009687 steroid binding site; other site 416344009688 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344009689 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344009690 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 416344009691 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 416344009692 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 416344009693 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344009694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009695 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 416344009696 dimerization interface [polypeptide binding]; other site 416344009697 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 416344009698 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 416344009699 putative substrate translocation pore; other site 416344009700 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 416344009701 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 416344009702 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 416344009703 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416344009704 active site 416344009705 catalytic tetrad [active] 416344009706 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 416344009707 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 416344009708 FMN binding site [chemical binding]; other site 416344009709 active site 416344009710 substrate binding site [chemical binding]; other site 416344009711 catalytic residue [active] 416344009712 Methyltransferase domain; Region: Methyltransf_24; pfam13578 416344009713 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344009714 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344009715 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 416344009716 internal virion protein D; Region: PHA00368 416344009717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344009718 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344009719 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 416344009720 SnoaL-like domain; Region: SnoaL_3; pfam13474 416344009721 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 416344009722 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 416344009723 conserved cys residue [active] 416344009724 short chain dehydrogenase; Provisional; Region: PRK06500 416344009725 classical (c) SDRs; Region: SDR_c; cd05233 416344009726 NAD(P) binding site [chemical binding]; other site 416344009727 active site 416344009728 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 416344009729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009730 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 416344009731 dimerization interface [polypeptide binding]; other site 416344009732 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 416344009733 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 416344009734 substrate binding pocket [chemical binding]; other site 416344009735 membrane-bound complex binding site; other site 416344009736 hinge residues; other site 416344009737 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 416344009738 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 416344009739 active site 416344009740 Zn binding site [ion binding]; other site 416344009741 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 416344009742 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 416344009743 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344009744 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 416344009745 trimer interface [polypeptide binding]; other site 416344009746 eyelet of channel; other site 416344009747 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 416344009748 Predicted membrane protein [Function unknown]; Region: COG2860 416344009749 UPF0126 domain; Region: UPF0126; pfam03458 416344009750 UPF0126 domain; Region: UPF0126; pfam03458 416344009751 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 416344009752 hypothetical protein; Provisional; Region: PRK11171 416344009753 Cupin domain; Region: Cupin_2; pfam07883 416344009754 Cupin domain; Region: Cupin_2; pfam07883 416344009755 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 416344009756 HIT family signature motif; other site 416344009757 catalytic residue [active] 416344009758 Beta-lactamase; Region: Beta-lactamase; pfam00144 416344009759 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 416344009760 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344009761 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 416344009762 putative C-terminal domain interface [polypeptide binding]; other site 416344009763 putative GSH binding site (G-site) [chemical binding]; other site 416344009764 putative dimer interface [polypeptide binding]; other site 416344009765 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 416344009766 putative N-terminal domain interface [polypeptide binding]; other site 416344009767 putative dimer interface [polypeptide binding]; other site 416344009768 putative substrate binding pocket (H-site) [chemical binding]; other site 416344009769 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 416344009770 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 416344009771 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 416344009772 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 416344009773 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 416344009774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416344009775 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 416344009776 putative hydrophobic ligand binding site [chemical binding]; other site 416344009777 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 416344009778 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 416344009779 putative catalytic residue [active] 416344009780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344009781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009782 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 416344009783 putative effector binding pocket; other site 416344009784 dimerization interface [polypeptide binding]; other site 416344009785 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 416344009786 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 416344009787 active site 416344009788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 416344009789 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 416344009790 active site residue [active] 416344009791 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 416344009792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009793 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 416344009794 putative dimerization interface [polypeptide binding]; other site 416344009795 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 416344009796 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 416344009797 tetramer interface [polypeptide binding]; other site 416344009798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344009799 catalytic residue [active] 416344009800 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 416344009801 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 416344009802 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 416344009803 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 416344009804 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 416344009805 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 416344009806 dimer interface [polypeptide binding]; other site 416344009807 conserved gate region; other site 416344009808 putative PBP binding loops; other site 416344009809 ABC-ATPase subunit interface; other site 416344009810 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 416344009811 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 416344009812 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 416344009813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344009814 Walker A/P-loop; other site 416344009815 ATP binding site [chemical binding]; other site 416344009816 Q-loop/lid; other site 416344009817 ABC transporter signature motif; other site 416344009818 Walker B; other site 416344009819 D-loop; other site 416344009820 H-loop/switch region; other site 416344009821 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 416344009822 dimer interface [polypeptide binding]; other site 416344009823 conserved gate region; other site 416344009824 putative PBP binding loops; other site 416344009825 ABC-ATPase subunit interface; other site 416344009826 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344009827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344009828 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 416344009829 dimerization interface [polypeptide binding]; other site 416344009830 Sulfatase; Region: Sulfatase; cl17466 416344009831 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 416344009832 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 416344009833 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 416344009834 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 416344009835 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 416344009836 Uncharacterized conserved protein [Function unknown]; Region: COG5361 416344009837 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 416344009838 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 416344009839 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 416344009840 metal-binding site [ion binding] 416344009841 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 416344009842 metal-binding site [ion binding] 416344009843 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 416344009844 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 416344009845 metal-binding site [ion binding] 416344009846 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416344009847 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 416344009848 motif II; other site 416344009849 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416344009850 Creatinine amidohydrolase; Region: Creatininase; cl00618 416344009851 MgtC family; Region: MgtC; pfam02308 416344009852 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 416344009853 putative active cleft [active] 416344009854 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 416344009855 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 416344009856 dimer interface [polypeptide binding]; other site 416344009857 ligand binding site [chemical binding]; other site 416344009858 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344009859 dimer interface [polypeptide binding]; other site 416344009860 putative CheW interface [polypeptide binding]; other site 416344009861 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 416344009862 CoenzymeA binding site [chemical binding]; other site 416344009863 subunit interaction site [polypeptide binding]; other site 416344009864 PHB binding site; other site 416344009865 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 416344009866 CoA-transferase family III; Region: CoA_transf_3; pfam02515 416344009867 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344009868 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 416344009869 DNA binding residues [nucleotide binding] 416344009870 dimerization interface [polypeptide binding]; other site 416344009871 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344009872 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 416344009873 DNA binding residues [nucleotide binding] 416344009874 dimerization interface [polypeptide binding]; other site 416344009875 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 416344009876 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 416344009877 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 416344009878 substrate binding site [chemical binding]; other site 416344009879 ligand binding site [chemical binding]; other site 416344009880 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 416344009881 substrate binding site [chemical binding]; other site 416344009882 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 416344009883 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 416344009884 dimer interface [polypeptide binding]; other site 416344009885 active site 416344009886 citrylCoA binding site [chemical binding]; other site 416344009887 oxalacetate/citrate binding site [chemical binding]; other site 416344009888 coenzyme A binding site [chemical binding]; other site 416344009889 catalytic triad [active] 416344009890 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 416344009891 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 416344009892 tetramer interface [polypeptide binding]; other site 416344009893 active site 416344009894 Mg2+/Mn2+ binding site [ion binding]; other site 416344009895 Propionate catabolism activator; Region: PrpR_N; pfam06506 416344009896 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 416344009897 PAS domain; Region: PAS; smart00091 416344009898 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 416344009899 Walker A motif; other site 416344009900 ATP binding site [chemical binding]; other site 416344009901 Walker B motif; other site 416344009902 arginine finger; other site 416344009903 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 416344009904 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 416344009905 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 416344009906 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344009907 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 416344009908 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344009909 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 416344009910 CoA binding domain; Region: CoA_binding_2; pfam13380 416344009911 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 416344009912 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416344009913 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344009914 Coenzyme A binding pocket [chemical binding]; other site 416344009915 H-NS histone family; Region: Histone_HNS; pfam00816 416344009916 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 416344009917 PAS fold; Region: PAS_4; pfam08448 416344009918 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 416344009919 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 416344009920 Walker B motif; other site 416344009921 arginine finger; other site 416344009922 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344009923 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 416344009924 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344009925 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 416344009926 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344009927 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 416344009928 Phosphoesterase family; Region: Phosphoesterase; pfam04185 416344009929 Domain of unknown function (DUF756); Region: DUF756; pfam05506 416344009930 Domain of unknown function (DUF756); Region: DUF756; pfam05506 416344009931 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 416344009932 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416344009933 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 416344009934 active site residue [active] 416344009935 outer membrane porin, OprD family; Region: OprD; pfam03573 416344009936 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 416344009937 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344009938 Walker A/P-loop; other site 416344009939 ATP binding site [chemical binding]; other site 416344009940 Q-loop/lid; other site 416344009941 ABC transporter signature motif; other site 416344009942 Walker B; other site 416344009943 D-loop; other site 416344009944 H-loop/switch region; other site 416344009945 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416344009946 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416344009947 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344009948 Walker A/P-loop; other site 416344009949 ATP binding site [chemical binding]; other site 416344009950 Q-loop/lid; other site 416344009951 ABC transporter signature motif; other site 416344009952 Walker B; other site 416344009953 D-loop; other site 416344009954 H-loop/switch region; other site 416344009955 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 416344009956 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 416344009957 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 416344009958 dimer interface [polypeptide binding]; other site 416344009959 conserved gate region; other site 416344009960 putative PBP binding loops; other site 416344009961 ABC-ATPase subunit interface; other site 416344009962 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 416344009963 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 416344009964 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 416344009965 ABC-ATPase subunit interface; other site 416344009966 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 416344009967 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 416344009968 peptide binding site [polypeptide binding]; other site 416344009969 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 416344009970 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 416344009971 salt bridge; other site 416344009972 non-specific DNA binding site [nucleotide binding]; other site 416344009973 sequence-specific DNA binding site [nucleotide binding]; other site 416344009974 Cupin domain; Region: Cupin_2; pfam07883 416344009975 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 416344009976 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 416344009977 putative substrate translocation pore; other site 416344009978 POT family; Region: PTR2; cl17359 416344009979 OpgC protein; Region: OpgC_C; pfam10129 416344009980 Acyltransferase family; Region: Acyl_transf_3; pfam01757 416344009981 Predicted permeases [General function prediction only]; Region: RarD; COG2962 416344009982 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 416344009983 acylphosphatase; Provisional; Region: PRK14424 416344009984 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 416344009985 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 416344009986 putative NADP binding site [chemical binding]; other site 416344009987 putative substrate binding site [chemical binding]; other site 416344009988 active site 416344009989 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 416344009990 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 416344009991 active site 416344009992 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 416344009993 LytB protein; Region: LYTB; pfam02401 416344009994 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 416344009995 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 416344009996 FeS/SAM binding site; other site 416344009997 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 416344009998 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 416344009999 SnoaL-like domain; Region: SnoaL_2; pfam12680 416344010000 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 416344010001 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 416344010002 Protein of unknown function (DUF466); Region: DUF466; pfam04328 416344010003 carbon starvation protein A; Provisional; Region: PRK15015 416344010004 Carbon starvation protein CstA; Region: CstA; pfam02554 416344010005 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 416344010006 PRC-barrel domain; Region: PRC; pfam05239 416344010007 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 416344010008 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416344010009 hypothetical protein; Provisional; Region: PRK11239 416344010010 Protein of unknown function, DUF480; Region: DUF480; pfam04337 416344010011 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416344010012 MULE transposase domain; Region: MULE; pfam10551 416344010013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 416344010014 short chain dehydrogenase; Provisional; Region: PRK07023 416344010015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344010016 NAD(P) binding site [chemical binding]; other site 416344010017 active site 416344010018 Cupin domain; Region: Cupin_2; pfam07883 416344010019 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 416344010020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344010021 DNA-binding site [nucleotide binding]; DNA binding site 416344010022 UTRA domain; Region: UTRA; pfam07702 416344010023 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 416344010024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010025 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 416344010026 dimerization interface [polypeptide binding]; other site 416344010027 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 416344010028 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 416344010029 DNA-binding interface [nucleotide binding]; DNA binding site 416344010030 Winged helix-turn helix; Region: HTH_29; pfam13551 416344010031 putative transposase OrfB; Reviewed; Region: PHA02517 416344010032 HTH-like domain; Region: HTH_21; pfam13276 416344010033 Integrase core domain; Region: rve; pfam00665 416344010034 Integrase core domain; Region: rve_3; pfam13683 416344010035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416344010036 Transposase; Region: HTH_Tnp_1; pfam01527 416344010037 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 416344010038 RT_Bac_retron_I: 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_I; cd01646 416344010039 putative active site [active] 416344010040 putative NTP binding site [chemical binding]; other site 416344010041 putative nucleic acid binding site [nucleotide binding]; other site 416344010042 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 416344010043 Caspase domain; Region: Peptidase_C14; pfam00656 416344010044 putative transposase OrfB; Reviewed; Region: PHA02517 416344010045 HTH-like domain; Region: HTH_21; pfam13276 416344010046 Integrase core domain; Region: rve; pfam00665 416344010047 Integrase core domain; Region: rve_3; pfam13683 416344010048 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 416344010049 DNA-binding interface [nucleotide binding]; DNA binding site 416344010050 Winged helix-turn helix; Region: HTH_29; pfam13551 416344010051 Integrase core domain; Region: rve; pfam00665 416344010052 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344010053 benzoate transport; Region: 2A0115; TIGR00895 416344010054 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 416344010055 putative substrate translocation pore; other site 416344010056 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 416344010057 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 416344010058 TAP-like protein; Region: Abhydrolase_4; pfam08386 416344010059 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 416344010060 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 416344010061 tetramer interface [polypeptide binding]; other site 416344010062 active site 416344010063 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 416344010064 Coenzyme A transferase; Region: CoA_trans; cl17247 416344010065 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 416344010066 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416344010067 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344010068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010069 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 416344010070 substrate binding pocket [chemical binding]; other site 416344010071 dimerization interface [polypeptide binding]; other site 416344010072 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 416344010073 GTP cyclohydrolase I; Provisional; Region: PLN03044 416344010074 active site 416344010075 short chain dehydrogenase; Provisional; Region: PRK09134 416344010076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344010077 NAD(P) binding site [chemical binding]; other site 416344010078 active site 416344010079 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 416344010080 serine O-acetyltransferase; Region: cysE; TIGR01172 416344010081 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 416344010082 trimer interface [polypeptide binding]; other site 416344010083 active site 416344010084 substrate binding site [chemical binding]; other site 416344010085 CoA binding site [chemical binding]; other site 416344010086 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 416344010087 Ligand Binding Site [chemical binding]; other site 416344010088 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 416344010089 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416344010090 ligand binding site [chemical binding]; other site 416344010091 flexible hinge region; other site 416344010092 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 416344010093 putative switch regulator; other site 416344010094 non-specific DNA interactions [nucleotide binding]; other site 416344010095 DNA binding site [nucleotide binding] 416344010096 sequence specific DNA binding site [nucleotide binding]; other site 416344010097 putative cAMP binding site [chemical binding]; other site 416344010098 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 416344010099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010100 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 416344010101 dimerization interface [polypeptide binding]; other site 416344010102 Lysine efflux permease [General function prediction only]; Region: COG1279 416344010103 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 416344010104 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416344010105 active site 416344010106 catalytic tetrad [active] 416344010107 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 416344010108 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 416344010109 putative molybdopterin cofactor binding site [chemical binding]; other site 416344010110 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 416344010111 putative molybdopterin cofactor binding site; other site 416344010112 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 416344010113 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 416344010114 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 416344010115 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344010116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344010117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010118 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 416344010119 putative dimerization interface [polypeptide binding]; other site 416344010120 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 416344010121 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344010122 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344010123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344010124 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416344010125 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 416344010126 malate dehydrogenase; Provisional; Region: PRK05442 416344010127 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 416344010128 NAD(P) binding site [chemical binding]; other site 416344010129 dimer interface [polypeptide binding]; other site 416344010130 malate binding site [chemical binding]; other site 416344010131 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 416344010132 gating phenylalanine in ion channel; other site 416344010133 Fimbrial protein; Region: Fimbrial; pfam00419 416344010134 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 416344010135 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 416344010136 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 416344010137 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 416344010138 PapC N-terminal domain; Region: PapC_N; pfam13954 416344010139 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 416344010140 PapC C-terminal domain; Region: PapC_C; pfam13953 416344010141 Fimbrial protein; Region: Fimbrial; cl01416 416344010142 Predicted transcriptional regulators [Transcription]; Region: COG1695 416344010143 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 416344010144 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 416344010145 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 416344010146 FAD binding pocket [chemical binding]; other site 416344010147 FAD binding motif [chemical binding]; other site 416344010148 phosphate binding motif [ion binding]; other site 416344010149 NAD binding pocket [chemical binding]; other site 416344010150 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 416344010151 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 416344010152 active site 416344010153 acetoacetate decarboxylase; Provisional; Region: PRK02265 416344010154 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 416344010155 classical (c) SDRs; Region: SDR_c; cd05233 416344010156 NAD(P) binding site [chemical binding]; other site 416344010157 active site 416344010158 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 416344010159 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 416344010160 nucleophile elbow; other site 416344010161 Patatin phospholipase; Region: DUF3734; pfam12536 416344010162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344010163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010164 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 416344010165 dimerization interface [polypeptide binding]; other site 416344010166 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 416344010167 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 416344010168 transcriptional activator TtdR; Provisional; Region: PRK09801 416344010169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010170 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 416344010171 putative effector binding pocket; other site 416344010172 putative dimerization interface [polypeptide binding]; other site 416344010173 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 416344010174 tartrate dehydrogenase; Region: TTC; TIGR02089 416344010175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 416344010176 SnoaL-like domain; Region: SnoaL_2; pfam12680 416344010177 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344010178 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344010179 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 416344010180 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 416344010181 NAD(P) binding site [chemical binding]; other site 416344010182 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 416344010183 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 416344010184 substrate-cofactor binding pocket; other site 416344010185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344010186 catalytic residue [active] 416344010187 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344010188 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 416344010189 non-specific DNA binding site [nucleotide binding]; other site 416344010190 salt bridge; other site 416344010191 sequence-specific DNA binding site [nucleotide binding]; other site 416344010192 Cupin domain; Region: Cupin_2; pfam07883 416344010193 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 416344010194 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 416344010195 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 416344010196 active site 416344010197 catalytic residues [active] 416344010198 Int/Topo IB signature motif; other site 416344010199 DNA binding site [nucleotide binding] 416344010200 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 416344010201 Initiator Replication protein; Region: Rep_3; pfam01051 416344010202 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 416344010203 ParB-like nuclease domain; Region: ParB; smart00470 416344010204 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 416344010205 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 416344010206 P-loop; other site 416344010207 Magnesium ion binding site [ion binding]; other site 416344010208 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 416344010209 ArsC family; Region: ArsC; pfam03960 416344010210 catalytic residues [active] 416344010211 Putative zinc-finger; Region: zf-HC2; pfam13490 416344010212 RNA polymerase sigma factor; Provisional; Region: PRK12545 416344010213 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344010214 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 416344010215 DNA binding residues [nucleotide binding] 416344010216 Predicted flavoprotein [General function prediction only]; Region: COG0431 416344010217 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344010218 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344010219 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 416344010220 dimer interface [polypeptide binding]; other site 416344010221 phosphorylation site [posttranslational modification] 416344010222 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 416344010223 ATP binding site [chemical binding]; other site 416344010224 Mg2+ binding site [ion binding]; other site 416344010225 G-X-G motif; other site 416344010226 Response regulator receiver domain; Region: Response_reg; pfam00072 416344010227 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 416344010228 active site 416344010229 phosphorylation site [posttranslational modification] 416344010230 intermolecular recognition site; other site 416344010231 dimerization interface [polypeptide binding]; other site 416344010232 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 416344010233 Response regulator receiver domain; Region: Response_reg; pfam00072 416344010234 active site 416344010235 phosphorylation site [posttranslational modification] 416344010236 intermolecular recognition site; other site 416344010237 dimerization interface [polypeptide binding]; other site 416344010238 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 416344010239 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 416344010240 putative active site [active] 416344010241 heme pocket [chemical binding]; other site 416344010242 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344010243 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344010244 metal binding site [ion binding]; metal-binding site 416344010245 active site 416344010246 I-site; other site 416344010247 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 416344010248 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344010249 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 416344010250 active site lid residues [active] 416344010251 substrate binding pocket [chemical binding]; other site 416344010252 catalytic residues [active] 416344010253 substrate-Mg2+ binding site; other site 416344010254 aspartate-rich region 1; other site 416344010255 aspartate-rich region 2; other site 416344010256 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344010257 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 416344010258 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 416344010259 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 416344010260 Active site cavity [active] 416344010261 catalytic acid [active] 416344010262 hypothetical protein; Provisional; Region: PRK07077 416344010263 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344010264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344010265 metal binding site [ion binding]; metal-binding site 416344010266 active site 416344010267 I-site; other site 416344010268 VacJ like lipoprotein; Region: VacJ; cl01073 416344010269 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 416344010270 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 416344010271 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344010272 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 416344010273 active site 416344010274 phosphorylation site [posttranslational modification] 416344010275 intermolecular recognition site; other site 416344010276 dimerization interface [polypeptide binding]; other site 416344010277 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 416344010278 DNA binding residues [nucleotide binding] 416344010279 dimerization interface [polypeptide binding]; other site 416344010280 Cache domain; Region: Cache_1; pfam02743 416344010281 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344010282 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344010283 metal binding site [ion binding]; metal-binding site 416344010284 active site 416344010285 I-site; other site 416344010286 malate synthase G; Provisional; Region: PRK02999 416344010287 active site 416344010288 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 416344010289 DEAD-like helicases superfamily; Region: DEXDc; smart00487 416344010290 ATP binding site [chemical binding]; other site 416344010291 Mg++ binding site [ion binding]; other site 416344010292 motif III; other site 416344010293 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 416344010294 nucleotide binding region [chemical binding]; other site 416344010295 ATP-binding site [chemical binding]; other site 416344010296 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416344010297 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 416344010298 dimer interface [polypeptide binding]; other site 416344010299 conserved gate region; other site 416344010300 putative PBP binding loops; other site 416344010301 ABC-ATPase subunit interface; other site 416344010302 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 416344010303 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 416344010304 dimer interface [polypeptide binding]; other site 416344010305 conserved gate region; other site 416344010306 putative PBP binding loops; other site 416344010307 ABC-ATPase subunit interface; other site 416344010308 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 416344010309 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416344010310 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 416344010311 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 416344010312 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 416344010313 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 416344010314 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 416344010315 Walker A/P-loop; other site 416344010316 ATP binding site [chemical binding]; other site 416344010317 Q-loop/lid; other site 416344010318 ABC transporter signature motif; other site 416344010319 Walker B; other site 416344010320 D-loop; other site 416344010321 H-loop/switch region; other site 416344010322 TOBE domain; Region: TOBE; cl01440 416344010323 TOBE domain; Region: TOBE_2; pfam08402 416344010324 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344010325 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344010326 DNA binding site [nucleotide binding] 416344010327 domain linker motif; other site 416344010328 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 416344010329 dimerization interface [polypeptide binding]; other site 416344010330 ligand binding site [chemical binding]; other site 416344010331 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 416344010332 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 416344010333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010334 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 416344010335 putative dimerization interface [polypeptide binding]; other site 416344010336 dihydroxy-acid dehydratase; Validated; Region: PRK06131 416344010337 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 416344010338 D-galactonate transporter; Region: 2A0114; TIGR00893 416344010339 putative substrate translocation pore; other site 416344010340 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 416344010341 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 416344010342 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 416344010343 inhibitor site; inhibition site 416344010344 active site 416344010345 dimer interface [polypeptide binding]; other site 416344010346 catalytic residue [active] 416344010347 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416344010348 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416344010349 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 416344010350 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 416344010351 ligand binding site [chemical binding]; other site 416344010352 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 416344010353 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416344010354 Walker A/P-loop; other site 416344010355 ATP binding site [chemical binding]; other site 416344010356 Q-loop/lid; other site 416344010357 ABC transporter signature motif; other site 416344010358 Walker B; other site 416344010359 D-loop; other site 416344010360 H-loop/switch region; other site 416344010361 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416344010362 Transposase domain (DUF772); Region: DUF772; pfam05598 416344010363 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416344010364 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344010365 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 416344010366 TM-ABC transporter signature motif; other site 416344010367 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 416344010368 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 416344010369 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 416344010370 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 416344010371 substrate binding site [chemical binding]; other site 416344010372 oxyanion hole (OAH) forming residues; other site 416344010373 trimer interface [polypeptide binding]; other site 416344010374 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 416344010375 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 416344010376 NAD(P) binding site [chemical binding]; other site 416344010377 catalytic residues [active] 416344010378 feruloyl-CoA synthase; Reviewed; Region: PRK08180 416344010379 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 416344010380 acyl-activating enzyme (AAE) consensus motif; other site 416344010381 putative AMP binding site [chemical binding]; other site 416344010382 putative active site [active] 416344010383 putative CoA binding site [chemical binding]; other site 416344010384 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 416344010385 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 416344010386 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344010387 active site 416344010388 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 416344010389 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344010390 MarR family; Region: MarR_2; pfam12802 416344010391 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 416344010392 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 416344010393 putative substrate translocation pore; other site 416344010394 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344010395 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 416344010396 trimer interface [polypeptide binding]; other site 416344010397 eyelet of channel; other site 416344010398 Tannase and feruloyl esterase; Region: Tannase; pfam07519 416344010399 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 416344010400 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 416344010401 active site 416344010402 catalytic site [active] 416344010403 substrate binding site [chemical binding]; other site 416344010404 aminotransferase; Validated; Region: PRK07046 416344010405 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 416344010406 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344010407 catalytic residue [active] 416344010408 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 416344010409 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 416344010410 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416344010411 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344010412 Coenzyme A binding pocket [chemical binding]; other site 416344010413 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 416344010414 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 416344010415 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 416344010416 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 416344010417 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 416344010418 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416344010419 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416344010420 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 416344010421 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 416344010422 carboxyltransferase (CT) interaction site; other site 416344010423 biotinylation site [posttranslational modification]; other site 416344010424 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 416344010425 putative active site [active] 416344010426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344010427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010428 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 416344010429 putative substrate binding pocket [chemical binding]; other site 416344010430 dimerization interface [polypeptide binding]; other site 416344010431 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 416344010432 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 416344010433 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 416344010434 active site 416344010435 homodimer interface [polypeptide binding]; other site 416344010436 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 416344010437 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 416344010438 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 416344010439 active site 416344010440 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 416344010441 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 416344010442 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 416344010443 active site 416344010444 dimer interface [polypeptide binding]; other site 416344010445 motif 1; other site 416344010446 motif 2; other site 416344010447 motif 3; other site 416344010448 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 416344010449 anticodon binding site; other site 416344010450 MEKHLA domain; Region: MEKHLA; pfam08670 416344010451 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344010452 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 416344010453 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 416344010454 Chromate transporter; Region: Chromate_transp; pfam02417 416344010455 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 416344010456 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 416344010457 putative metal binding site [ion binding]; other site 416344010458 putative homodimer interface [polypeptide binding]; other site 416344010459 putative homotetramer interface [polypeptide binding]; other site 416344010460 putative homodimer-homodimer interface [polypeptide binding]; other site 416344010461 putative allosteric switch controlling residues; other site 416344010462 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 416344010463 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 416344010464 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 416344010465 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 416344010466 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344010467 putative substrate translocation pore; other site 416344010468 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 416344010469 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 416344010470 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 416344010471 catalytic core [active] 416344010472 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 416344010473 Phosphotransferase enzyme family; Region: APH; pfam01636 416344010474 putative active site [active] 416344010475 putative substrate binding site [chemical binding]; other site 416344010476 ATP binding site [chemical binding]; other site 416344010477 short chain dehydrogenase; Provisional; Region: PRK07035 416344010478 classical (c) SDRs; Region: SDR_c; cd05233 416344010479 NAD(P) binding site [chemical binding]; other site 416344010480 active site 416344010481 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 416344010482 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344010483 active site 416344010484 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 416344010485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010486 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 416344010487 substrate binding pocket [chemical binding]; other site 416344010488 dimerization interface [polypeptide binding]; other site 416344010489 DnaJ domain; Region: DnaJ; pfam00226 416344010490 HSP70 interaction site [polypeptide binding]; other site 416344010491 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344010492 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344010493 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010494 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 416344010495 putative effector binding pocket; other site 416344010496 dimerization interface [polypeptide binding]; other site 416344010497 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 416344010498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010499 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 416344010500 dimerization interface [polypeptide binding]; other site 416344010501 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 416344010502 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 416344010503 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344010504 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344010505 Fusaric acid resistance protein family; Region: FUSC; pfam04632 416344010506 DNA polymerase II; Reviewed; Region: PRK05762 416344010507 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 416344010508 active site 416344010509 catalytic site [active] 416344010510 substrate binding site [chemical binding]; other site 416344010511 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 416344010512 active site 416344010513 metal-binding site 416344010514 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 416344010515 putative active site [active] 416344010516 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344010517 heme pocket [chemical binding]; other site 416344010518 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 416344010519 dimer interface [polypeptide binding]; other site 416344010520 phosphorylation site [posttranslational modification] 416344010521 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 416344010522 ATP binding site [chemical binding]; other site 416344010523 Mg2+ binding site [ion binding]; other site 416344010524 G-X-G motif; other site 416344010525 Response regulator receiver domain; Region: Response_reg; pfam00072 416344010526 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 416344010527 active site 416344010528 phosphorylation site [posttranslational modification] 416344010529 intermolecular recognition site; other site 416344010530 dimerization interface [polypeptide binding]; other site 416344010531 phage resistance protein; Provisional; Region: PRK10551 416344010532 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 416344010533 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 416344010534 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 416344010535 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 416344010536 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344010537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344010538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010539 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 416344010540 putative dimerization interface [polypeptide binding]; other site 416344010541 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416344010542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344010543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344010544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344010545 NAD(P) binding site [chemical binding]; other site 416344010546 active site 416344010547 benzoate transporter; Region: benE; TIGR00843 416344010548 Benzoate membrane transport protein; Region: BenE; pfam03594 416344010549 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 416344010550 Fatty acid desaturase; Region: FA_desaturase; pfam00487 416344010551 putative di-iron ligands [ion binding]; other site 416344010552 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 416344010553 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 416344010554 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 416344010555 ATP binding site [chemical binding]; other site 416344010556 Mg++ binding site [ion binding]; other site 416344010557 motif III; other site 416344010558 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 416344010559 nucleotide binding region [chemical binding]; other site 416344010560 ATP-binding site [chemical binding]; other site 416344010561 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 416344010562 putative RNA binding site [nucleotide binding]; other site 416344010563 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 416344010564 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344010565 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 416344010566 AsnC family; Region: AsnC_trans_reg; pfam01037 416344010567 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 416344010568 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 416344010569 active site 416344010570 Zn binding site [ion binding]; other site 416344010571 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 416344010572 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416344010573 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 416344010574 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344010575 catalytic residues [active] 416344010576 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 416344010577 dimerization interface [polypeptide binding]; other site 416344010578 putative DNA binding site [nucleotide binding]; other site 416344010579 putative Zn2+ binding site [ion binding]; other site 416344010580 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 416344010581 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344010582 catalytic residue [active] 416344010583 Cupin domain; Region: Cupin_2; cl17218 416344010584 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 416344010585 classical (c) SDRs; Region: SDR_c; cd05233 416344010586 NAD(P) binding site [chemical binding]; other site 416344010587 active site 416344010588 Predicted membrane protein [Function unknown]; Region: COG4541 416344010589 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 416344010590 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344010591 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 416344010592 putative DNA binding site [nucleotide binding]; other site 416344010593 putative Zn2+ binding site [ion binding]; other site 416344010594 AsnC family; Region: AsnC_trans_reg; pfam01037 416344010595 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 416344010596 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 416344010597 catalytic residues [active] 416344010598 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 416344010599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344010600 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 416344010601 dimer interface [polypeptide binding]; other site 416344010602 phosphorylation site [posttranslational modification] 416344010603 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 416344010604 ATP binding site [chemical binding]; other site 416344010605 Mg2+ binding site [ion binding]; other site 416344010606 G-X-G motif; other site 416344010607 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 416344010608 Response regulator receiver domain; Region: Response_reg; pfam00072 416344010609 active site 416344010610 phosphorylation site [posttranslational modification] 416344010611 intermolecular recognition site; other site 416344010612 dimerization interface [polypeptide binding]; other site 416344010613 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 416344010614 BetR domain; Region: BetR; pfam08667 416344010615 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 416344010616 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 416344010617 active site 416344010618 phosphorylation site [posttranslational modification] 416344010619 intermolecular recognition site; other site 416344010620 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 416344010621 dimer interface [polypeptide binding]; other site 416344010622 phosphorylation site [posttranslational modification] 416344010623 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 416344010624 ATP binding site [chemical binding]; other site 416344010625 Mg2+ binding site [ion binding]; other site 416344010626 G-X-G motif; other site 416344010627 Response regulator receiver domain; Region: Response_reg; pfam00072 416344010628 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 416344010629 active site 416344010630 phosphorylation site [posttranslational modification] 416344010631 intermolecular recognition site; other site 416344010632 dimerization interface [polypeptide binding]; other site 416344010633 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 416344010634 active site 416344010635 phosphorylation site [posttranslational modification] 416344010636 intermolecular recognition site; other site 416344010637 dimerization interface [polypeptide binding]; other site 416344010638 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 416344010639 DNA binding residues [nucleotide binding] 416344010640 dimerization interface [polypeptide binding]; other site 416344010641 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 416344010642 dimer interface [polypeptide binding]; other site 416344010643 phosphorylation site [posttranslational modification] 416344010644 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 416344010645 ATP binding site [chemical binding]; other site 416344010646 Mg2+ binding site [ion binding]; other site 416344010647 G-X-G motif; other site 416344010648 Response regulator receiver domain; Region: Response_reg; pfam00072 416344010649 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 416344010650 active site 416344010651 phosphorylation site [posttranslational modification] 416344010652 intermolecular recognition site; other site 416344010653 dimerization interface [polypeptide binding]; other site 416344010654 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 416344010655 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 416344010656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344010657 catalytic residue [active] 416344010658 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 416344010659 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 416344010660 putative DNA binding site [nucleotide binding]; other site 416344010661 putative Zn2+ binding site [ion binding]; other site 416344010662 AsnC family; Region: AsnC_trans_reg; pfam01037 416344010663 pyruvate dehydrogenase; Provisional; Region: PRK09124 416344010664 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 416344010665 PYR/PP interface [polypeptide binding]; other site 416344010666 tetramer interface [polypeptide binding]; other site 416344010667 dimer interface [polypeptide binding]; other site 416344010668 TPP binding site [chemical binding]; other site 416344010669 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416344010670 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 416344010671 TPP-binding site [chemical binding]; other site 416344010672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344010673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010674 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 416344010675 dimerization interface [polypeptide binding]; other site 416344010676 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 416344010677 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344010678 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 416344010679 DNA binding residues [nucleotide binding] 416344010680 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 416344010681 D-galactonate transporter; Region: 2A0114; TIGR00893 416344010682 putative substrate translocation pore; other site 416344010683 Predicted transcriptional regulators [Transcription]; Region: COG1733 416344010684 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 416344010685 glutathionine S-transferase; Provisional; Region: PRK10542 416344010686 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 416344010687 C-terminal domain interface [polypeptide binding]; other site 416344010688 GSH binding site (G-site) [chemical binding]; other site 416344010689 dimer interface [polypeptide binding]; other site 416344010690 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 416344010691 dimer interface [polypeptide binding]; other site 416344010692 N-terminal domain interface [polypeptide binding]; other site 416344010693 substrate binding pocket (H-site) [chemical binding]; other site 416344010694 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 416344010695 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 416344010696 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 416344010697 generic binding surface II; other site 416344010698 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 416344010699 putative active site [active] 416344010700 putative catalytic site [active] 416344010701 putative Mg binding site IVb [ion binding]; other site 416344010702 putative phosphate binding site [ion binding]; other site 416344010703 putative DNA binding site [nucleotide binding]; other site 416344010704 putative Mg binding site IVa [ion binding]; other site 416344010705 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 416344010706 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 416344010707 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 416344010708 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 416344010709 dimer interface [polypeptide binding]; other site 416344010710 active site 416344010711 glycine-pyridoxal phosphate binding site [chemical binding]; other site 416344010712 folate binding site [chemical binding]; other site 416344010713 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 416344010714 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 416344010715 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344010716 catalytic residue [active] 416344010717 Putative phosphatase (DUF442); Region: DUF442; cl17385 416344010718 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344010719 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 416344010720 putative C-terminal domain interface [polypeptide binding]; other site 416344010721 putative GSH binding site (G-site) [chemical binding]; other site 416344010722 putative dimer interface [polypeptide binding]; other site 416344010723 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 416344010724 dimer interface [polypeptide binding]; other site 416344010725 N-terminal domain interface [polypeptide binding]; other site 416344010726 putative substrate binding pocket (H-site) [chemical binding]; other site 416344010727 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 416344010728 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344010729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344010730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344010731 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010732 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 416344010733 dimerization interface [polypeptide binding]; other site 416344010734 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 416344010735 Response regulator receiver domain; Region: Response_reg; pfam00072 416344010736 active site 416344010737 phosphorylation site [posttranslational modification] 416344010738 intermolecular recognition site; other site 416344010739 dimerization interface [polypeptide binding]; other site 416344010740 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 416344010741 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 416344010742 putative active site [active] 416344010743 heme pocket [chemical binding]; other site 416344010744 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 416344010745 putative active site [active] 416344010746 heme pocket [chemical binding]; other site 416344010747 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344010748 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 416344010749 dimer interface [polypeptide binding]; other site 416344010750 phosphorylation site [posttranslational modification] 416344010751 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 416344010752 ATP binding site [chemical binding]; other site 416344010753 Mg2+ binding site [ion binding]; other site 416344010754 G-X-G motif; other site 416344010755 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 416344010756 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 416344010757 active site 416344010758 phosphorylation site [posttranslational modification] 416344010759 intermolecular recognition site; other site 416344010760 dimerization interface [polypeptide binding]; other site 416344010761 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 416344010762 DNA binding residues [nucleotide binding] 416344010763 dimerization interface [polypeptide binding]; other site 416344010764 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 416344010765 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 416344010766 putative substrate translocation pore; other site 416344010767 mercuric reductase; Validated; Region: PRK06370 416344010768 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344010769 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416344010770 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 416344010771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344010772 NAD(P) binding site [chemical binding]; other site 416344010773 active site 416344010774 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 416344010775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344010776 NAD(P) binding site [chemical binding]; other site 416344010777 active site 416344010778 BON domain; Region: BON; pfam04972 416344010779 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 416344010780 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 416344010781 Uncharacterized conserved protein [Function unknown]; Region: COG1359 416344010782 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 416344010783 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 416344010784 putative substrate translocation pore; other site 416344010785 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344010786 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344010787 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416344010788 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344010789 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 416344010790 N-terminal domain interface [polypeptide binding]; other site 416344010791 dimer interface [polypeptide binding]; other site 416344010792 substrate binding pocket (H-site) [chemical binding]; other site 416344010793 Predicted membrane protein [Function unknown]; Region: COG2259 416344010794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344010795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010796 LysR substrate binding domain; Region: LysR_substrate; pfam03466 416344010797 dimerization interface [polypeptide binding]; other site 416344010798 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 416344010799 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416344010800 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 416344010801 motif II; other site 416344010802 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 416344010803 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 416344010804 DNA binding residues [nucleotide binding] 416344010805 dimer interface [polypeptide binding]; other site 416344010806 copper binding site [ion binding]; other site 416344010807 Copper resistance protein D; Region: CopD; cl00563 416344010808 Copper resistance protein D; Region: CopD; cl00563 416344010809 CopC domain; Region: CopC; pfam04234 416344010810 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 416344010811 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 416344010812 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 416344010813 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 416344010814 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 416344010815 Repair protein; Region: Repair_PSII; pfam04536 416344010816 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 416344010817 Repair protein; Region: Repair_PSII; pfam04536 416344010818 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 416344010819 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 416344010820 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 416344010821 glutaminase active site [active] 416344010822 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 416344010823 dimer interface [polypeptide binding]; other site 416344010824 active site 416344010825 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 416344010826 dimer interface [polypeptide binding]; other site 416344010827 active site 416344010828 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 416344010829 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344010830 AsnC family; Region: AsnC_trans_reg; pfam01037 416344010831 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 416344010832 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 416344010833 DNA binding site [nucleotide binding] 416344010834 active site 416344010835 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 416344010836 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344010837 putative substrate translocation pore; other site 416344010838 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344010839 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344010840 DNA binding site [nucleotide binding] 416344010841 domain linker motif; other site 416344010842 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 416344010843 dimerization interface [polypeptide binding]; other site 416344010844 ligand binding site [chemical binding]; other site 416344010845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344010846 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416344010847 NAD(P) binding site [chemical binding]; other site 416344010848 active site 416344010849 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 416344010850 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 416344010851 haemagglutination activity domain; Region: Haemagg_act; pfam05860 416344010852 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 416344010853 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 416344010854 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 416344010855 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 416344010856 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 416344010857 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 416344010858 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 416344010859 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 416344010860 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 416344010861 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 416344010862 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 416344010863 tetrameric interface [polypeptide binding]; other site 416344010864 activator binding site; other site 416344010865 NADP binding site [chemical binding]; other site 416344010866 substrate binding site [chemical binding]; other site 416344010867 catalytic residues [active] 416344010868 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344010869 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010870 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 416344010871 dimerization interface [polypeptide binding]; other site 416344010872 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 416344010873 CsbD-like; Region: CsbD; cl17424 416344010874 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 416344010875 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 416344010876 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 416344010877 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 416344010878 putative active site [active] 416344010879 heme pocket [chemical binding]; other site 416344010880 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344010881 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 416344010882 DNA binding residues [nucleotide binding] 416344010883 dimerization interface [polypeptide binding]; other site 416344010884 CsbD-like; Region: CsbD; pfam05532 416344010885 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344010886 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 416344010887 dimerization interface [polypeptide binding]; other site 416344010888 ligand binding site [chemical binding]; other site 416344010889 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344010890 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344010891 PAS domain; Region: PAS_9; pfam13426 416344010892 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 416344010893 putative active site [active] 416344010894 heme pocket [chemical binding]; other site 416344010895 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344010896 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 416344010897 DNA binding residues [nucleotide binding] 416344010898 dimerization interface [polypeptide binding]; other site 416344010899 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 416344010900 metabolite-proton symporter; Region: 2A0106; TIGR00883 416344010901 putative substrate translocation pore; other site 416344010902 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 416344010903 Autoinducer binding domain; Region: Autoind_bind; pfam03472 416344010904 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 416344010905 DNA binding residues [nucleotide binding] 416344010906 dimerization interface [polypeptide binding]; other site 416344010907 Autoinducer synthetase; Region: Autoind_synth; cl17404 416344010908 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 416344010909 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 416344010910 dimer interface [polypeptide binding]; other site 416344010911 active site 416344010912 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 416344010913 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416344010914 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 416344010915 Fatty acid desaturase; Region: FA_desaturase; pfam00487 416344010916 putative di-iron ligands [ion binding]; other site 416344010917 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 416344010918 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 416344010919 iron-sulfur cluster [ion binding]; other site 416344010920 [2Fe-2S] cluster binding site [ion binding]; other site 416344010921 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 416344010922 hydrophobic ligand binding site; other site 416344010923 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 416344010924 putative substrate translocation pore; other site 416344010925 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 416344010926 acyl-CoA synthetase; Validated; Region: PRK05850 416344010927 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 416344010928 acyl-activating enzyme (AAE) consensus motif; other site 416344010929 active site 416344010930 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 416344010931 Di-iron ligands [ion binding]; other site 416344010932 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 416344010933 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 416344010934 Fatty acid desaturase; Region: FA_desaturase; pfam00487 416344010935 Di-iron ligands [ion binding]; other site 416344010936 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 416344010937 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 416344010938 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 416344010939 putative di-iron ligands [ion binding]; other site 416344010940 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344010941 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344010942 TAP-like protein; Region: Abhydrolase_4; pfam08386 416344010943 Rubredoxin [Energy production and conversion]; Region: COG1773 416344010944 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 416344010945 iron binding site [ion binding]; other site 416344010946 putative acyltransferase; Provisional; Region: PRK05790 416344010947 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 416344010948 dimer interface [polypeptide binding]; other site 416344010949 active site 416344010950 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 416344010951 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 416344010952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344010953 homodimer interface [polypeptide binding]; other site 416344010954 catalytic residue [active] 416344010955 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 416344010956 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 416344010957 Epoxide hydrolase N terminus; Region: EHN; pfam06441 416344010958 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344010959 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344010960 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344010961 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344010962 LysE type translocator; Region: LysE; cl00565 416344010963 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344010964 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 416344010965 trimer interface [polypeptide binding]; other site 416344010966 eyelet of channel; other site 416344010967 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 416344010968 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 416344010969 putative NAD(P) binding site [chemical binding]; other site 416344010970 transcriptional regulator; Provisional; Region: PRK10632 416344010971 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010972 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 416344010973 putative effector binding pocket; other site 416344010974 putative dimerization interface [polypeptide binding]; other site 416344010975 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 416344010976 D-galactonate transporter; Region: 2A0114; TIGR00893 416344010977 putative substrate translocation pore; other site 416344010978 transcriptional regulator, ArgP family; Region: argP; TIGR03298 416344010979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344010980 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 416344010981 dimerization interface [polypeptide binding]; other site 416344010982 hypothetical protein; Provisional; Region: PRK05463 416344010983 benzoate transport; Region: 2A0115; TIGR00895 416344010984 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 416344010985 putative substrate translocation pore; other site 416344010986 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 416344010987 5-oxoprolinase; Region: PLN02666 416344010988 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 416344010989 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 416344010990 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 416344010991 RNase II stability modulator; Provisional; Region: PRK10060 416344010992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344010993 metal binding site [ion binding]; metal-binding site 416344010994 active site 416344010995 I-site; other site 416344010996 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 416344010997 enoyl-CoA hydratase; Validated; Region: PRK08788 416344010998 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 416344010999 substrate binding site [chemical binding]; other site 416344011000 oxyanion hole (OAH) forming residues; other site 416344011001 trimer interface [polypeptide binding]; other site 416344011002 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 416344011003 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 416344011004 Cupin; Region: Cupin_6; pfam12852 416344011005 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344011006 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344011007 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344011008 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 416344011009 putative substrate translocation pore; other site 416344011010 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344011011 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 416344011012 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344011013 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 416344011014 putative C-terminal domain interface [polypeptide binding]; other site 416344011015 putative GSH binding site (G-site) [chemical binding]; other site 416344011016 putative dimer interface [polypeptide binding]; other site 416344011017 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 416344011018 dimer interface [polypeptide binding]; other site 416344011019 N-terminal domain interface [polypeptide binding]; other site 416344011020 putative substrate binding pocket (H-site) [chemical binding]; other site 416344011021 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 416344011022 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 416344011023 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 416344011024 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 416344011025 dimer interface [polypeptide binding]; other site 416344011026 active site 416344011027 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416344011028 substrate binding site [chemical binding]; other site 416344011029 catalytic residue [active] 416344011030 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344011031 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011032 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 416344011033 dimerization interface [polypeptide binding]; other site 416344011034 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344011035 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 416344011036 nucleotide binding site [chemical binding]; other site 416344011037 putative NEF/HSP70 interaction site [polypeptide binding]; other site 416344011038 SBD interface [polypeptide binding]; other site 416344011039 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 416344011040 nucleotide binding site [chemical binding]; other site 416344011041 putative NEF/HSP70 interaction site [polypeptide binding]; other site 416344011042 SBD interface [polypeptide binding]; other site 416344011043 DNA-K related protein; Region: DUF3731; pfam12531 416344011044 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 416344011045 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 416344011046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 416344011047 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 416344011048 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 416344011049 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344011050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011051 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 416344011052 dimerization interface [polypeptide binding]; other site 416344011053 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344011054 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 416344011055 putative ligand binding site [chemical binding]; other site 416344011056 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344011057 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 416344011058 TM-ABC transporter signature motif; other site 416344011059 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 416344011060 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 416344011061 TM-ABC transporter signature motif; other site 416344011062 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 416344011063 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 416344011064 Walker A/P-loop; other site 416344011065 ATP binding site [chemical binding]; other site 416344011066 Q-loop/lid; other site 416344011067 ABC transporter signature motif; other site 416344011068 Walker B; other site 416344011069 D-loop; other site 416344011070 H-loop/switch region; other site 416344011071 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 416344011072 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 416344011073 Walker A/P-loop; other site 416344011074 ATP binding site [chemical binding]; other site 416344011075 Q-loop/lid; other site 416344011076 ABC transporter signature motif; other site 416344011077 Walker B; other site 416344011078 D-loop; other site 416344011079 H-loop/switch region; other site 416344011080 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 416344011081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344011082 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 416344011083 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 416344011084 dimer interface [polypeptide binding]; other site 416344011085 phosphorylation site [posttranslational modification] 416344011086 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 416344011087 ATP binding site [chemical binding]; other site 416344011088 Mg2+ binding site [ion binding]; other site 416344011089 G-X-G motif; other site 416344011090 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344011091 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 416344011092 active site 416344011093 phosphorylation site [posttranslational modification] 416344011094 intermolecular recognition site; other site 416344011095 dimerization interface [polypeptide binding]; other site 416344011096 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 416344011097 DNA binding site [nucleotide binding] 416344011098 NMT1-like family; Region: NMT1_2; pfam13379 416344011099 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 416344011100 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 416344011101 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 416344011102 putative substrate translocation pore; other site 416344011103 Histidine kinase; Region: HisKA_3; pfam07730 416344011104 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 416344011105 ATP binding site [chemical binding]; other site 416344011106 G-X-G motif; other site 416344011107 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344011108 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 416344011109 active site 416344011110 phosphorylation site [posttranslational modification] 416344011111 intermolecular recognition site; other site 416344011112 dimerization interface [polypeptide binding]; other site 416344011113 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 416344011114 DNA binding residues [nucleotide binding] 416344011115 dimerization interface [polypeptide binding]; other site 416344011116 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416344011117 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 416344011118 active site 416344011119 LssY C-terminus; Region: LssY_C; pfam14067 416344011120 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 416344011121 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344011122 Coenzyme A binding pocket [chemical binding]; other site 416344011123 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 416344011124 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416344011125 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344011126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 416344011127 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344011128 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 416344011129 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 416344011130 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 416344011131 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 416344011132 dimer interface [polypeptide binding]; other site 416344011133 conserved gate region; other site 416344011134 putative PBP binding loops; other site 416344011135 ABC-ATPase subunit interface; other site 416344011136 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 416344011137 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 416344011138 dimer interface [polypeptide binding]; other site 416344011139 conserved gate region; other site 416344011140 putative PBP binding loops; other site 416344011141 ABC-ATPase subunit interface; other site 416344011142 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 416344011143 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344011144 Walker A/P-loop; other site 416344011145 ATP binding site [chemical binding]; other site 416344011146 Q-loop/lid; other site 416344011147 ABC transporter signature motif; other site 416344011148 Walker B; other site 416344011149 D-loop; other site 416344011150 H-loop/switch region; other site 416344011151 TOBE domain; Region: TOBE_2; pfam08402 416344011152 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344011153 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 416344011154 dimerization interface [polypeptide binding]; other site 416344011155 putative Zn2+ binding site [ion binding]; other site 416344011156 putative DNA binding site [nucleotide binding]; other site 416344011157 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344011158 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 416344011159 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 416344011160 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344011161 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344011162 dimer interface [polypeptide binding]; other site 416344011163 putative CheW interface [polypeptide binding]; other site 416344011164 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 416344011165 Sel1-like repeats; Region: SEL1; smart00671 416344011166 PAAR motif; Region: PAAR_motif; pfam05488 416344011167 cyanate transporter; Region: CynX; TIGR00896 416344011168 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 416344011169 putative substrate translocation pore; other site 416344011170 Helix-turn-helix domain; Region: HTH_31; pfam13560 416344011171 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 416344011172 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416344011173 putative NAD(P) binding site [chemical binding]; other site 416344011174 mercuric reductase; Validated; Region: PRK06370 416344011175 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344011176 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416344011177 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344011178 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 416344011179 Domain of unknown function (DUF802); Region: DUF802; pfam05650 416344011180 Domain of unknown function (DUF802); Region: DUF802; pfam05650 416344011181 hypothetical protein; Provisional; Region: PRK09040 416344011182 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344011183 ligand binding site [chemical binding]; other site 416344011184 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 416344011185 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 416344011186 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344011187 Predicted flavoprotein [General function prediction only]; Region: COG0431 416344011188 Phospholipid methyltransferase; Region: PEMT; cl17370 416344011189 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 416344011190 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344011191 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 416344011192 S-formylglutathione hydrolase; Region: PLN02442 416344011193 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 416344011194 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 416344011195 short chain dehydrogenase; Provisional; Region: PRK06181 416344011196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344011197 NAD(P) binding site [chemical binding]; other site 416344011198 active site 416344011199 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344011200 LysR family transcriptional regulator; Provisional; Region: PRK14997 416344011201 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011202 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 416344011203 putative effector binding pocket; other site 416344011204 dimerization interface [polypeptide binding]; other site 416344011205 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 416344011206 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344011207 putative C-terminal domain interface [polypeptide binding]; other site 416344011208 putative GSH binding site (G-site) [chemical binding]; other site 416344011209 putative dimer interface [polypeptide binding]; other site 416344011210 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 416344011211 N-terminal domain interface [polypeptide binding]; other site 416344011212 dimer interface [polypeptide binding]; other site 416344011213 substrate binding pocket (H-site) [chemical binding]; other site 416344011214 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 416344011215 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 416344011216 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 416344011217 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 416344011218 FAD binding pocket [chemical binding]; other site 416344011219 FAD binding motif [chemical binding]; other site 416344011220 phosphate binding motif [ion binding]; other site 416344011221 beta-alpha-beta structure motif; other site 416344011222 NAD binding pocket [chemical binding]; other site 416344011223 Heme binding pocket [chemical binding]; other site 416344011224 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 416344011225 catalytic loop [active] 416344011226 iron binding site [ion binding]; other site 416344011227 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 416344011228 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 416344011229 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 416344011230 N-terminal plug; other site 416344011231 ligand-binding site [chemical binding]; other site 416344011232 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 416344011233 Phosphotransferase enzyme family; Region: APH; pfam01636 416344011234 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 416344011235 active site 416344011236 ATP binding site [chemical binding]; other site 416344011237 substrate binding site [chemical binding]; other site 416344011238 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 416344011239 Peptidase family M50; Region: Peptidase_M50; pfam02163 416344011240 active site 416344011241 putative substrate binding region [chemical binding]; other site 416344011242 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344011243 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344011244 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344011245 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344011246 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344011247 Outer membrane efflux protein; Region: OEP; pfam02321 416344011248 Outer membrane efflux protein; Region: OEP; pfam02321 416344011249 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 416344011250 Cadherin repeat-like domain; Region: CA_like; cl15786 416344011251 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 416344011252 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 416344011253 homodimer interface [polypeptide binding]; other site 416344011254 substrate-cofactor binding pocket; other site 416344011255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344011256 catalytic residue [active] 416344011257 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 416344011258 S-adenosylmethionine binding site [chemical binding]; other site 416344011259 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344011260 choline dehydrogenase; Validated; Region: PRK02106 416344011261 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 416344011262 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 416344011263 argininosuccinate synthase; Validated; Region: PRK05370 416344011264 argininosuccinate synthase; Provisional; Region: PRK13820 416344011265 Predicted membrane protein [Function unknown]; Region: COG1289 416344011266 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 416344011267 Cache domain; Region: Cache_1; pfam02743 416344011268 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344011269 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344011270 metal binding site [ion binding]; metal-binding site 416344011271 active site 416344011272 I-site; other site 416344011273 lysine transporter; Provisional; Region: PRK10836 416344011274 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 416344011275 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 416344011276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011277 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 416344011278 dimerizarion interface [polypeptide binding]; other site 416344011279 CrgA pocket; other site 416344011280 substrate binding pocket [chemical binding]; other site 416344011281 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344011282 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 416344011283 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344011284 DNA-binding site [nucleotide binding]; DNA binding site 416344011285 UTRA domain; Region: UTRA; pfam07702 416344011286 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 416344011287 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 416344011288 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 416344011289 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416344011290 active site 416344011291 metal binding site [ion binding]; metal-binding site 416344011292 hexamer interface [polypeptide binding]; other site 416344011293 hypothetical protein; Provisional; Region: PRK09936 416344011294 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 416344011295 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 416344011296 NodB motif; other site 416344011297 putative active site [active] 416344011298 putative catalytic site [active] 416344011299 putative Zn binding site [ion binding]; other site 416344011300 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 416344011301 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 416344011302 active site 416344011303 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 416344011304 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 416344011305 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 416344011306 TPR motif; other site 416344011307 binding surface 416344011308 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 416344011309 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 416344011310 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416344011311 ligand binding site [chemical binding]; other site 416344011312 flexible hinge region; other site 416344011313 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 416344011314 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 416344011315 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 416344011316 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 416344011317 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344011318 ligand binding site [chemical binding]; other site 416344011319 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 416344011320 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 416344011321 active site 416344011322 homodimer interface [polypeptide binding]; other site 416344011323 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 416344011324 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 416344011325 glutaminase active site [active] 416344011326 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 416344011327 dimer interface [polypeptide binding]; other site 416344011328 active site 416344011329 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 416344011330 dimer interface [polypeptide binding]; other site 416344011331 active site 416344011332 TIGR02594 family protein; Region: TIGR02594 416344011333 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344011334 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416344011335 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 416344011336 putative substrate translocation pore; other site 416344011337 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 416344011338 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 416344011339 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344011340 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344011341 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344011342 MarR family; Region: MarR_2; pfam12802 416344011343 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344011344 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011345 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 416344011346 putative effector binding pocket; other site 416344011347 dimerization interface [polypeptide binding]; other site 416344011348 Transcriptional regulators [Transcription]; Region: MarR; COG1846 416344011349 MarR family; Region: MarR_2; pfam12802 416344011350 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 416344011351 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344011352 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344011353 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 416344011354 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 416344011355 active site 416344011356 FMN binding site [chemical binding]; other site 416344011357 2,4-decadienoyl-CoA binding site; other site 416344011358 catalytic residue [active] 416344011359 4Fe-4S cluster binding site [ion binding]; other site 416344011360 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344011361 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 416344011362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344011363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011364 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 416344011365 dimerization interface [polypeptide binding]; other site 416344011366 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 416344011367 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344011368 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 416344011369 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 416344011370 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 416344011371 dimer interface [polypeptide binding]; other site 416344011372 active site 416344011373 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 416344011374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011375 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 416344011376 dimerizarion interface [polypeptide binding]; other site 416344011377 CrgA pocket; other site 416344011378 substrate binding pocket [chemical binding]; other site 416344011379 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344011380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344011381 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 416344011382 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 416344011383 putative alpha subunit interface [polypeptide binding]; other site 416344011384 putative active site [active] 416344011385 putative substrate binding site [chemical binding]; other site 416344011386 Fe binding site [ion binding]; other site 416344011387 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 416344011388 [2Fe-2S] cluster binding site [ion binding]; other site 416344011389 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 416344011390 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344011391 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344011392 Protein of unknown function (DUF445); Region: DUF445; pfam04286 416344011393 Predicted transcriptional regulator [Transcription]; Region: COG3636 416344011394 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 416344011395 acetolactate synthase; Reviewed; Region: PRK08322 416344011396 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416344011397 PYR/PP interface [polypeptide binding]; other site 416344011398 dimer interface [polypeptide binding]; other site 416344011399 TPP binding site [chemical binding]; other site 416344011400 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416344011401 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 416344011402 TPP-binding site [chemical binding]; other site 416344011403 dimer interface [polypeptide binding]; other site 416344011404 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 416344011405 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344011406 NAD(P) binding site [chemical binding]; other site 416344011407 catalytic residues [active] 416344011408 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 416344011409 Response regulator receiver domain; Region: Response_reg; pfam00072 416344011410 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 416344011411 active site 416344011412 phosphorylation site [posttranslational modification] 416344011413 intermolecular recognition site; other site 416344011414 dimerization interface [polypeptide binding]; other site 416344011415 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344011416 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 416344011417 dimer interface [polypeptide binding]; other site 416344011418 phosphorylation site [posttranslational modification] 416344011419 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 416344011420 ATP binding site [chemical binding]; other site 416344011421 Mg2+ binding site [ion binding]; other site 416344011422 G-X-G motif; other site 416344011423 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 416344011424 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 416344011425 dimerization interface [polypeptide binding]; other site 416344011426 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344011427 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344011428 dimer interface [polypeptide binding]; other site 416344011429 putative CheW interface [polypeptide binding]; other site 416344011430 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 416344011431 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 416344011432 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 416344011433 Tetratricopeptide repeat; Region: TPR_16; pfam13432 416344011434 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 416344011435 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; cl00086 416344011436 putative binding surface; other site 416344011437 active site 416344011438 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 416344011439 ATP binding site [chemical binding]; other site 416344011440 Mg2+ binding site [ion binding]; other site 416344011441 G-X-G motif; other site 416344011442 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 416344011443 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 416344011444 Response regulator receiver domain; Region: Response_reg; pfam00072 416344011445 active site 416344011446 phosphorylation site [posttranslational modification] 416344011447 intermolecular recognition site; other site 416344011448 dimerization interface [polypeptide binding]; other site 416344011449 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 416344011450 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 416344011451 active site 416344011452 phosphorylation site [posttranslational modification] 416344011453 intermolecular recognition site; other site 416344011454 CheB methylesterase; Region: CheB_methylest; pfam01339 416344011455 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 416344011456 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 416344011457 putative Cl- selectivity filter; other site 416344011458 putative pore gating glutamate residue; other site 416344011459 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 416344011460 Lumazine binding domain; Region: Lum_binding; pfam00677 416344011461 Lumazine binding domain; Region: Lum_binding; pfam00677 416344011462 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416344011463 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416344011464 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 416344011465 Walker A/P-loop; other site 416344011466 ATP binding site [chemical binding]; other site 416344011467 Q-loop/lid; other site 416344011468 ABC transporter signature motif; other site 416344011469 Walker B; other site 416344011470 D-loop; other site 416344011471 H-loop/switch region; other site 416344011472 OsmC-like protein; Region: OsmC; pfam02566 416344011473 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344011474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011475 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 416344011476 substrate binding pocket [chemical binding]; other site 416344011477 dimerization interface [polypeptide binding]; other site 416344011478 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344011479 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344011480 manganese transport protein MntH; Reviewed; Region: PRK00701 416344011481 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416344011482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344011483 short chain dehydrogenase; Validated; Region: PRK07069 416344011484 NAD(P) binding site [chemical binding]; other site 416344011485 active site 416344011486 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 416344011487 Prostaglandin dehydrogenases; Region: PGDH; cd05288 416344011488 NAD(P) binding site [chemical binding]; other site 416344011489 substrate binding site [chemical binding]; other site 416344011490 dimer interface [polypeptide binding]; other site 416344011491 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 416344011492 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416344011493 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 416344011494 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 416344011495 YCII-related domain; Region: YCII; cl00999 416344011496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 416344011497 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 416344011498 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344011499 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 416344011500 Transcriptional activator HlyU; Region: HlyU; cl02273 416344011501 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 416344011502 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 416344011503 Substrate binding site; other site 416344011504 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 416344011505 CoA-binding domain; Region: CoA_binding_3; pfam13727 416344011506 Bacterial sugar transferase; Region: Bac_transf; pfam02397 416344011507 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 416344011508 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 416344011509 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 416344011510 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 416344011511 Low molecular weight phosphatase family; Region: LMWPc; cd00115 416344011512 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 416344011513 active site 416344011514 polysaccharide export protein Wza; Provisional; Region: PRK15078 416344011515 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 416344011516 SLBB domain; Region: SLBB; pfam10531 416344011517 SLBB domain; Region: SLBB; pfam10531 416344011518 tyrosine kinase; Provisional; Region: PRK11519 416344011519 Chain length determinant protein; Region: Wzz; pfam02706 416344011520 Chain length determinant protein; Region: Wzz; cl15801 416344011521 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 416344011522 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 416344011523 P-loop; other site 416344011524 Magnesium ion binding site [ion binding]; other site 416344011525 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 416344011526 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 416344011527 active site 416344011528 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 416344011529 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344011530 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 416344011531 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 416344011532 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344011533 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 416344011534 Predicted transcriptional regulators [Transcription]; Region: COG1733 416344011535 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 416344011536 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416344011537 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 416344011538 putative substrate translocation pore; other site 416344011539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344011540 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344011541 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344011542 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 416344011543 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 416344011544 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 416344011545 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 416344011546 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 416344011547 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 416344011548 Walker A motif; other site 416344011549 ATP binding site [chemical binding]; other site 416344011550 Walker B motif; other site 416344011551 arginine finger; other site 416344011552 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344011553 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 416344011554 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344011555 substrate binding pocket [chemical binding]; other site 416344011556 membrane-bound complex binding site; other site 416344011557 hinge residues; other site 416344011558 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 416344011559 RES domain; Region: RES; smart00953 416344011560 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 416344011561 active site 416344011562 metal binding site [ion binding]; metal-binding site 416344011563 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 416344011564 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 416344011565 S-adenosylmethionine binding site [chemical binding]; other site 416344011566 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 416344011567 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 416344011568 active site 416344011569 catalytic site [active] 416344011570 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 416344011571 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 416344011572 active site 416344011573 thiamine phosphate binding site [chemical binding]; other site 416344011574 pyrophosphate binding site [ion binding]; other site 416344011575 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 416344011576 Domain of unknown function DUF21; Region: DUF21; pfam01595 416344011577 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 416344011578 Transporter associated domain; Region: CorC_HlyC; smart01091 416344011579 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 416344011580 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344011581 dimer interface [polypeptide binding]; other site 416344011582 phosphorylation site [posttranslational modification] 416344011583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011584 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 416344011585 dimerization interface [polypeptide binding]; other site 416344011586 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 416344011587 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 416344011588 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 416344011589 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 416344011590 molybdenum-pterin binding domain; Region: Mop; TIGR00638 416344011591 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 416344011592 TOBE domain; Region: TOBE; cl01440 416344011593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344011594 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 416344011595 Walker A/P-loop; other site 416344011596 ATP binding site [chemical binding]; other site 416344011597 Q-loop/lid; other site 416344011598 ABC transporter signature motif; other site 416344011599 Walker B; other site 416344011600 D-loop; other site 416344011601 H-loop/switch region; other site 416344011602 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 416344011603 putative PBP binding loops; other site 416344011604 dimer interface [polypeptide binding]; other site 416344011605 ABC-ATPase subunit interface; other site 416344011606 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 416344011607 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416344011608 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 416344011609 active site 416344011610 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 416344011611 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 416344011612 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 416344011613 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344011614 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 416344011615 putative Zn2+ binding site [ion binding]; other site 416344011616 putative DNA binding site [nucleotide binding]; other site 416344011617 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 416344011618 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 416344011619 putative active site [active] 416344011620 putative substrate binding site [chemical binding]; other site 416344011621 ATP binding site [chemical binding]; other site 416344011622 AMP nucleosidase; Provisional; Region: PRK08292 416344011623 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 416344011624 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 416344011625 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 416344011626 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 416344011627 active site 416344011628 DNA binding site [nucleotide binding] 416344011629 Int/Topo IB signature motif; other site 416344011630 DNA primase domain-containing protein; Region: PHA02415 416344011631 CHC2 zinc finger; Region: zf-CHC2; cl17510 416344011632 Toprim domain; Region: Toprim_3; pfam13362 416344011633 active site 416344011634 metal binding site [ion binding]; metal-binding site 416344011635 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 416344011636 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344011637 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 416344011638 sequence-specific DNA binding site [nucleotide binding]; other site 416344011639 salt bridge; other site 416344011640 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344011641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011642 tail protein; Provisional; Region: D; PHA02561 416344011643 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 416344011644 Phage-related tail protein [Function unknown]; Region: COG5283 416344011645 Phage-related minor tail protein [Function unknown]; Region: COG5280 416344011646 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 416344011647 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 416344011648 Phage tail tube protein FII; Region: Phage_tube; pfam04985 416344011649 major tail sheath protein; Provisional; Region: FI; PHA02560 416344011650 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 416344011651 DNA methylase; Region: N6_N4_Mtase; pfam01555 416344011652 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 416344011653 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 416344011654 baseplate assembly protein; Provisional; Region: J; PHA02568 416344011655 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 416344011656 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 416344011657 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 416344011658 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 416344011659 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 416344011660 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 416344011661 Protein of unknown function (DUF754); Region: DUF754; pfam05449 416344011662 Phage Tail Protein X; Region: Phage_tail_X; cl02088 416344011663 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 416344011664 terminase endonuclease subunit; Provisional; Region: M; PHA02537 416344011665 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 416344011666 capsid protein; Provisional; Region: N; PHA02538 416344011667 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 416344011668 terminase ATPase subunit; Provisional; Region: P; PHA02535 416344011669 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 416344011670 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 416344011671 nSec1 interaction sites; other site 416344011672 interdomain interaction site; other site 416344011673 linker region; other site 416344011674 portal vertex protein; Provisional; Region: Q; PHA02536 416344011675 Phage portal protein; Region: Phage_portal; pfam04860 416344011676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344011677 Walker A/P-loop; other site 416344011678 ATP binding site [chemical binding]; other site 416344011679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344011680 Walker B; other site 416344011681 D-loop; other site 416344011682 H-loop/switch region; other site 416344011683 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 416344011684 DNA polymerase I; Provisional; Region: PRK05755 416344011685 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 416344011686 active site 416344011687 putative 5' ssDNA interaction site; other site 416344011688 metal binding site 3; metal-binding site 416344011689 metal binding site 1 [ion binding]; metal-binding site 416344011690 metal binding site 2 [ion binding]; metal-binding site 416344011691 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 416344011692 putative DNA binding site [nucleotide binding]; other site 416344011693 putative metal binding site [ion binding]; other site 416344011694 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 416344011695 active site 416344011696 catalytic site [active] 416344011697 substrate binding site [chemical binding]; other site 416344011698 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 416344011699 active site 416344011700 DNA binding site [nucleotide binding] 416344011701 catalytic site [active] 416344011702 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 416344011703 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344011704 Dienelactone hydrolase family; Region: DLH; pfam01738 416344011705 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 416344011706 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 416344011707 active site residue [active] 416344011708 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 416344011709 active site residue [active] 416344011710 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 416344011711 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 416344011712 [2Fe-2S] cluster binding site [ion binding]; other site 416344011713 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 416344011714 alpha subunit interface [polypeptide binding]; other site 416344011715 active site 416344011716 substrate binding site [chemical binding]; other site 416344011717 Fe binding site [ion binding]; other site 416344011718 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 416344011719 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 416344011720 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416344011721 substrate binding pocket [chemical binding]; other site 416344011722 chain length determination region; other site 416344011723 substrate-Mg2+ binding site; other site 416344011724 catalytic residues [active] 416344011725 aspartate-rich region 1; other site 416344011726 active site lid residues [active] 416344011727 aspartate-rich region 2; other site 416344011728 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 416344011729 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 416344011730 TPP-binding site; other site 416344011731 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 416344011732 PYR/PP interface [polypeptide binding]; other site 416344011733 dimer interface [polypeptide binding]; other site 416344011734 TPP binding site [chemical binding]; other site 416344011735 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416344011736 putative GTP cyclohydrolase; Provisional; Region: PRK13674 416344011737 UGMP family protein; Validated; Region: PRK09604 416344011738 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 416344011739 Predicted flavoproteins [General function prediction only]; Region: COG2081 416344011740 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 416344011741 Yqey-like protein; Region: YqeY; pfam09424 416344011742 DNA primase; Validated; Region: dnaG; PRK05667 416344011743 CHC2 zinc finger; Region: zf-CHC2; pfam01807 416344011744 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 416344011745 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 416344011746 active site 416344011747 metal binding site [ion binding]; metal-binding site 416344011748 interdomain interaction site; other site 416344011749 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 416344011750 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 416344011751 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 416344011752 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 416344011753 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 416344011754 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 416344011755 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344011756 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 416344011757 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 416344011758 DNA binding residues [nucleotide binding] 416344011759 Calcium-activated chloride channel; Region: CLCA_N; pfam08434 416344011760 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 416344011761 dimer interface [polypeptide binding]; other site 416344011762 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 416344011763 dimerization interface [polypeptide binding]; other site 416344011764 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344011765 dimer interface [polypeptide binding]; other site 416344011766 putative CheW interface [polypeptide binding]; other site 416344011767 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 416344011768 active site 416344011769 nucleophile elbow; other site 416344011770 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 416344011771 putative active site [active] 416344011772 catalytic site [active] 416344011773 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 416344011774 PLD-like domain; Region: PLDc_2; pfam13091 416344011775 putative active site [active] 416344011776 catalytic site [active] 416344011777 putative mechanosensitive channel protein; Provisional; Region: PRK11465 416344011778 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416344011779 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 416344011780 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 416344011781 NAD-dependent deacetylase; Provisional; Region: PRK05333 416344011782 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 416344011783 Protein of unknown function (DUF938); Region: DUF938; pfam06080 416344011784 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416344011785 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 416344011786 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 416344011787 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344011788 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416344011789 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 416344011790 E3 interaction surface; other site 416344011791 lipoyl attachment site [posttranslational modification]; other site 416344011792 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 416344011793 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 416344011794 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 416344011795 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 416344011796 N-terminal plug; other site 416344011797 ligand-binding site [chemical binding]; other site 416344011798 Lipase (class 2); Region: Lipase_2; pfam01674 416344011799 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 416344011800 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 416344011801 Lipase (class 2); Region: Lipase_2; pfam01674 416344011802 PGAP1-like protein; Region: PGAP1; pfam07819 416344011803 lipase chaperone; Provisional; Region: PRK01294 416344011804 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 416344011805 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 416344011806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344011807 DNA-binding site [nucleotide binding]; DNA binding site 416344011808 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 416344011809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344011810 homodimer interface [polypeptide binding]; other site 416344011811 catalytic residue [active] 416344011812 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 416344011813 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 416344011814 Walker A/P-loop; other site 416344011815 ATP binding site [chemical binding]; other site 416344011816 Q-loop/lid; other site 416344011817 ABC transporter signature motif; other site 416344011818 Walker B; other site 416344011819 D-loop; other site 416344011820 H-loop/switch region; other site 416344011821 TOBE domain; Region: TOBE_2; pfam08402 416344011822 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 416344011823 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 416344011824 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 416344011825 dimer interface [polypeptide binding]; other site 416344011826 conserved gate region; other site 416344011827 putative PBP binding loops; other site 416344011828 ABC-ATPase subunit interface; other site 416344011829 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 416344011830 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 416344011831 dimer interface [polypeptide binding]; other site 416344011832 conserved gate region; other site 416344011833 putative PBP binding loops; other site 416344011834 ABC-ATPase subunit interface; other site 416344011835 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 416344011836 peptidase domain interface [polypeptide binding]; other site 416344011837 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 416344011838 active site 416344011839 catalytic triad [active] 416344011840 calcium binding site [ion binding]; other site 416344011841 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 416344011842 dimerization interface [polypeptide binding]; other site 416344011843 putative DNA binding site [nucleotide binding]; other site 416344011844 putative Zn2+ binding site [ion binding]; other site 416344011845 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 416344011846 putative hydrophobic ligand binding site [chemical binding]; other site 416344011847 Domain of unknown function (DU1801); Region: DUF1801; cl17490 416344011848 aconitate hydratase; Provisional; Region: acnA; PRK12881 416344011849 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 416344011850 substrate binding site [chemical binding]; other site 416344011851 ligand binding site [chemical binding]; other site 416344011852 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 416344011853 substrate binding site [chemical binding]; other site 416344011854 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 416344011855 2-methylcitrate dehydratase; Region: prpD; TIGR02330 416344011856 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 416344011857 malate dehydrogenase; Provisional; Region: PRK05442 416344011858 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 416344011859 NAD(P) binding site [chemical binding]; other site 416344011860 dimer interface [polypeptide binding]; other site 416344011861 malate binding site [chemical binding]; other site 416344011862 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 416344011863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344011864 DNA-binding site [nucleotide binding]; DNA binding site 416344011865 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 416344011866 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 416344011867 Iron-sulfur protein interface; other site 416344011868 proximal quinone binding site [chemical binding]; other site 416344011869 SdhD (CybS) interface [polypeptide binding]; other site 416344011870 proximal heme binding site [chemical binding]; other site 416344011871 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 416344011872 SdhC subunit interface [polypeptide binding]; other site 416344011873 proximal heme binding site [chemical binding]; other site 416344011874 cardiolipin binding site; other site 416344011875 Iron-sulfur protein interface; other site 416344011876 proximal quinone binding site [chemical binding]; other site 416344011877 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 416344011878 L-aspartate oxidase; Provisional; Region: PRK06175 416344011879 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 416344011880 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 416344011881 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 416344011882 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 416344011883 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 416344011884 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 416344011885 dimer interface [polypeptide binding]; other site 416344011886 active site 416344011887 citrylCoA binding site [chemical binding]; other site 416344011888 NADH binding [chemical binding]; other site 416344011889 cationic pore residues; other site 416344011890 oxalacetate/citrate binding site [chemical binding]; other site 416344011891 coenzyme A binding site [chemical binding]; other site 416344011892 catalytic triad [active] 416344011893 Cupin domain; Region: Cupin_2; cl17218 416344011894 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416344011895 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344011896 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 416344011897 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344011898 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 416344011899 indole acetimide hydrolase; Validated; Region: PRK07488 416344011900 Amidase; Region: Amidase; pfam01425 416344011901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344011902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011903 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 416344011904 putative effector binding pocket; other site 416344011905 dimerization interface [polypeptide binding]; other site 416344011906 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 416344011907 putative substrate translocation pore; other site 416344011908 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 416344011909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 416344011910 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 416344011911 Rieske non-heme iron oxygenase (RO) family, Anthranilate 1,2-dioxygenase (AntDO) 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_AntDO; cd03538 416344011912 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 416344011913 putative alpha subunit interface [polypeptide binding]; other site 416344011914 putative active site [active] 416344011915 putative substrate binding site [chemical binding]; other site 416344011916 Fe binding site [ion binding]; other site 416344011917 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 416344011918 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 416344011919 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 416344011920 glutathione s-transferase; Provisional; Region: PTZ00057 416344011921 GSH binding site (G-site) [chemical binding]; other site 416344011922 C-terminal domain interface [polypeptide binding]; other site 416344011923 dimer interface [polypeptide binding]; other site 416344011924 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 416344011925 dimer interface [polypeptide binding]; other site 416344011926 N-terminal domain interface [polypeptide binding]; other site 416344011927 substrate binding pocket (H-site) [chemical binding]; other site 416344011928 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 416344011929 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 416344011930 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 416344011931 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 416344011932 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 416344011933 Protein of unknown function (DUF877); Region: DUF877; pfam05943 416344011934 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344011935 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 416344011936 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344011937 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344011938 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 416344011939 catalytic residue [active] 416344011940 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 416344011941 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 416344011942 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 416344011943 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 416344011944 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 416344011945 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 416344011946 Cache domain; Region: Cache_1; pfam02743 416344011947 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344011948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344011949 metal binding site [ion binding]; metal-binding site 416344011950 active site 416344011951 I-site; other site 416344011952 Cupin domain; Region: Cupin_2; pfam07883 416344011953 S-formylglutathione hydrolase; Region: PLN02442 416344011954 Putative esterase; Region: Esterase; pfam00756 416344011955 OpgC protein; Region: OpgC_C; pfam10129 416344011956 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344011957 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 416344011958 trimer interface [polypeptide binding]; other site 416344011959 eyelet of channel; other site 416344011960 Predicted ester cyclase [General function prediction only]; Region: COG5485 416344011961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344011962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011963 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 416344011964 putative dimerization interface [polypeptide binding]; other site 416344011965 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416344011966 Peptidase family M23; Region: Peptidase_M23; pfam01551 416344011967 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 416344011968 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344011969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344011970 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 416344011971 substrate binding pocket [chemical binding]; other site 416344011972 dimerization interface [polypeptide binding]; other site 416344011973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344011974 NmrA-like family; Region: NmrA; pfam05368 416344011975 NAD(P) binding site [chemical binding]; other site 416344011976 active site 416344011977 Predicted membrane protein [Function unknown]; Region: COG2261 416344011978 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 416344011979 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344011980 Walker A/P-loop; other site 416344011981 ATP binding site [chemical binding]; other site 416344011982 Q-loop/lid; other site 416344011983 ABC transporter signature motif; other site 416344011984 Walker B; other site 416344011985 D-loop; other site 416344011986 H-loop/switch region; other site 416344011987 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 416344011988 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344011989 Walker A/P-loop; other site 416344011990 ATP binding site [chemical binding]; other site 416344011991 Q-loop/lid; other site 416344011992 ABC transporter signature motif; other site 416344011993 Walker B; other site 416344011994 D-loop; other site 416344011995 H-loop/switch region; other site 416344011996 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416344011997 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 416344011998 dimer interface [polypeptide binding]; other site 416344011999 conserved gate region; other site 416344012000 putative PBP binding loops; other site 416344012001 ABC-ATPase subunit interface; other site 416344012002 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416344012003 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 416344012004 dimer interface [polypeptide binding]; other site 416344012005 conserved gate region; other site 416344012006 putative PBP binding loops; other site 416344012007 ABC-ATPase subunit interface; other site 416344012008 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 416344012009 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 416344012010 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 416344012011 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344012012 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 416344012013 non-specific DNA binding site [nucleotide binding]; other site 416344012014 salt bridge; other site 416344012015 sequence-specific DNA binding site [nucleotide binding]; other site 416344012016 HipA N-terminal domain; Region: Couple_hipA; pfam13657 416344012017 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 416344012018 HipA-like N-terminal domain; Region: HipA_N; pfam07805 416344012019 HipA-like C-terminal domain; Region: HipA_C; pfam07804 416344012020 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 416344012021 Cupin; Region: Cupin_1; smart00835 416344012022 Cupin; Region: Cupin_1; smart00835 416344012023 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 416344012024 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416344012025 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 416344012026 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 416344012027 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 416344012028 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 416344012029 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 416344012030 putative molybdopterin cofactor binding site [chemical binding]; other site 416344012031 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 416344012032 putative molybdopterin cofactor binding site; other site 416344012033 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 416344012034 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344012035 DNA-binding site [nucleotide binding]; DNA binding site 416344012036 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 416344012037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344012038 homodimer interface [polypeptide binding]; other site 416344012039 catalytic residue [active] 416344012040 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 416344012041 putative substrate translocation pore; other site 416344012042 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 416344012043 Isochorismatase family; Region: Isochorismatase; pfam00857 416344012044 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 416344012045 catalytic triad [active] 416344012046 conserved cis-peptide bond; other site 416344012047 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344012048 MarR family; Region: MarR; pfam01047 416344012049 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 416344012050 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 416344012051 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 416344012052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012053 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 416344012054 dimerization interface [polypeptide binding]; other site 416344012055 substrate binding pocket [chemical binding]; other site 416344012056 magnesium-transporting ATPase; Provisional; Region: PRK15122 416344012057 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 416344012058 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416344012059 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416344012060 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416344012061 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416344012062 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 416344012063 active site 416344012064 catalytic triad [active] 416344012065 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 416344012066 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344012067 substrate binding pocket [chemical binding]; other site 416344012068 membrane-bound complex binding site; other site 416344012069 hinge residues; other site 416344012070 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 416344012071 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 416344012072 putative substrate translocation pore; other site 416344012073 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 416344012074 Transglycosylase; Region: Transgly; pfam00912 416344012075 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 416344012076 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 416344012077 Bacterial Ig-like domain; Region: Big_5; pfam13205 416344012078 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 416344012079 MG2 domain; Region: A2M_N; pfam01835 416344012080 Alpha-2-macroglobulin family; Region: A2M; pfam00207 416344012081 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 416344012082 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 416344012083 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 416344012084 Cytochrome c; Region: Cytochrom_C; pfam00034 416344012085 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344012086 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344012087 Cytochrome c; Region: Cytochrom_C; pfam00034 416344012088 Predicted membrane protein [Function unknown]; Region: COG2259 416344012089 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344012090 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 416344012091 trimer interface [polypeptide binding]; other site 416344012092 eyelet of channel; other site 416344012093 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 416344012094 metabolite-proton symporter; Region: 2A0106; TIGR00883 416344012095 putative substrate translocation pore; other site 416344012096 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 416344012097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012098 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 416344012099 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 416344012100 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 416344012101 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 416344012102 Cl- selectivity filter; other site 416344012103 Cl- binding residues [ion binding]; other site 416344012104 pore gating glutamate residue; other site 416344012105 dimer interface [polypeptide binding]; other site 416344012106 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 416344012107 FOG: CBS domain [General function prediction only]; Region: COG0517 416344012108 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 416344012109 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 416344012110 HPP family; Region: HPP; pfam04982 416344012111 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 416344012112 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 416344012113 transcriptional regulator; Provisional; Region: PRK10632 416344012114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012115 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 416344012116 putative effector binding pocket; other site 416344012117 dimerization interface [polypeptide binding]; other site 416344012118 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 416344012119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012120 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 416344012121 putative dimerization interface [polypeptide binding]; other site 416344012122 putative substrate binding pocket [chemical binding]; other site 416344012123 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 416344012124 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 416344012125 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 416344012126 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344012127 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344012128 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 416344012129 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 416344012130 active site 416344012131 AMP binding site [chemical binding]; other site 416344012132 homodimer interface [polypeptide binding]; other site 416344012133 acyl-activating enzyme (AAE) consensus motif; other site 416344012134 CoA binding site [chemical binding]; other site 416344012135 enoyl-CoA hydratase; Provisional; Region: PRK05995 416344012136 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 416344012137 substrate binding site [chemical binding]; other site 416344012138 oxyanion hole (OAH) forming residues; other site 416344012139 trimer interface [polypeptide binding]; other site 416344012140 MarC family integral membrane protein; Region: MarC; cl00919 416344012141 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 416344012142 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416344012143 active site 416344012144 catalytic tetrad [active] 416344012145 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 416344012146 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 416344012147 putative NAD(P) binding site [chemical binding]; other site 416344012148 catalytic Zn binding site [ion binding]; other site 416344012149 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416344012150 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416344012151 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 416344012152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344012153 Coenzyme A binding pocket [chemical binding]; other site 416344012154 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344012155 DNA-binding site [nucleotide binding]; DNA binding site 416344012156 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 416344012157 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 416344012158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344012159 homodimer interface [polypeptide binding]; other site 416344012160 catalytic residue [active] 416344012161 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 416344012162 putative substrate translocation pore; other site 416344012163 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344012164 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 416344012165 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012166 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 416344012167 putative dimerization interface [polypeptide binding]; other site 416344012168 putative substrate binding pocket [chemical binding]; other site 416344012169 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 416344012170 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 416344012171 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 416344012172 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 416344012173 protein binding site [polypeptide binding]; other site 416344012174 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 416344012175 putative substrate translocation pore; other site 416344012176 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 416344012177 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 416344012178 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344012179 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344012180 Flagellin N-methylase; Region: FliB; pfam03692 416344012181 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 416344012182 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 416344012183 NMT1-like family; Region: NMT1_2; pfam13379 416344012184 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 416344012185 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 416344012186 active site 416344012187 phosphorylation site [posttranslational modification] 416344012188 intermolecular recognition site; other site 416344012189 dimerization interface [polypeptide binding]; other site 416344012190 ANTAR domain; Region: ANTAR; pfam03861 416344012191 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 416344012192 active site 416344012193 SAM binding site [chemical binding]; other site 416344012194 homodimer interface [polypeptide binding]; other site 416344012195 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 416344012196 nitrite reductase subunit NirD; Provisional; Region: PRK14989 416344012197 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344012198 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 416344012199 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 416344012200 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 416344012201 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 416344012202 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 416344012203 [4Fe-4S] binding site [ion binding]; other site 416344012204 molybdopterin cofactor binding site; other site 416344012205 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 416344012206 molybdopterin cofactor binding site; other site 416344012207 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 416344012208 Flavodoxin; Region: Flavodoxin_1; pfam00258 416344012209 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 416344012210 FAD binding pocket [chemical binding]; other site 416344012211 FAD binding motif [chemical binding]; other site 416344012212 catalytic residues [active] 416344012213 NAD binding pocket [chemical binding]; other site 416344012214 phosphate binding motif [ion binding]; other site 416344012215 beta-alpha-beta structure motif; other site 416344012216 Predicted integral membrane protein [Function unknown]; Region: COG0392 416344012217 Uncharacterized conserved protein [Function unknown]; Region: COG2898 416344012218 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 416344012219 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 416344012220 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 416344012221 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 416344012222 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344012223 DNA-binding site [nucleotide binding]; DNA binding site 416344012224 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 416344012225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344012226 homodimer interface [polypeptide binding]; other site 416344012227 catalytic residue [active] 416344012228 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416344012229 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416344012230 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 416344012231 dimerization interface [polypeptide binding]; other site 416344012232 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344012233 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344012234 metal binding site [ion binding]; metal-binding site 416344012235 active site 416344012236 I-site; other site 416344012237 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344012238 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 416344012239 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344012240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012241 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 416344012242 dimerization interface [polypeptide binding]; other site 416344012243 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344012244 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 416344012245 active site 416344012246 metal binding site [ion binding]; metal-binding site 416344012247 putative transporter; Provisional; Region: PRK10504 416344012248 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 416344012249 putative substrate translocation pore; other site 416344012250 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 416344012251 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 416344012252 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 416344012253 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 416344012254 DNA-binding site [nucleotide binding]; DNA binding site 416344012255 RNA-binding motif; other site 416344012256 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416344012257 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 416344012258 putative substrate translocation pore; other site 416344012259 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 416344012260 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 416344012261 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 416344012262 Winged helix-turn helix; Region: HTH_29; pfam13551 416344012263 Homeodomain-like domain; Region: HTH_23; pfam13384 416344012264 Homeodomain-like domain; Region: HTH_32; pfam13565 416344012265 DDE superfamily endonuclease; Region: DDE_3; pfam13358 416344012266 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 416344012267 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 416344012268 Integrase core domain; Region: rve_3; cl15866 416344012269 Winged helix-turn helix; Region: HTH_29; pfam13551 416344012270 Homeodomain-like domain; Region: HTH_23; pfam13384 416344012271 Homeodomain-like domain; Region: HTH_32; pfam13565 416344012272 DDE superfamily endonuclease; Region: DDE_3; pfam13358 416344012273 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344012274 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 416344012275 putative DNA binding site [nucleotide binding]; other site 416344012276 putative Zn2+ binding site [ion binding]; other site 416344012277 AsnC family; Region: AsnC_trans_reg; pfam01037 416344012278 LysE type translocator; Region: LysE; cl00565 416344012279 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 416344012280 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 416344012281 N-terminal plug; other site 416344012282 ligand-binding site [chemical binding]; other site 416344012283 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 416344012284 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 416344012285 tetramer interface [polypeptide binding]; other site 416344012286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344012287 catalytic residue [active] 416344012288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 416344012289 YheO-like PAS domain; Region: PAS_6; pfam08348 416344012290 HTH domain; Region: HTH_22; pfam13309 416344012291 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 416344012292 putative deacylase active site [active] 416344012293 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 416344012294 tetramer interface [polypeptide binding]; other site 416344012295 active site 416344012296 Mg2+/Mn2+ binding site [ion binding]; other site 416344012297 isocitrate lyase; Region: PLN02892 416344012298 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 416344012299 active site 416344012300 substrate-binding site [chemical binding]; other site 416344012301 metal-binding site [ion binding] 416344012302 GTP binding site [chemical binding]; other site 416344012303 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 416344012304 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 416344012305 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 416344012306 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 416344012307 active site 416344012308 homotetramer interface [polypeptide binding]; other site 416344012309 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 416344012310 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 416344012311 N-terminal plug; other site 416344012312 ligand-binding site [chemical binding]; other site 416344012313 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 416344012314 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 416344012315 NAD binding site [chemical binding]; other site 416344012316 substrate binding site [chemical binding]; other site 416344012317 catalytic Zn binding site [ion binding]; other site 416344012318 tetramer interface [polypeptide binding]; other site 416344012319 structural Zn binding site [ion binding]; other site 416344012320 BNR repeat-like domain; Region: BNR_2; pfam13088 416344012321 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344012322 MarR family; Region: MarR_2; pfam12802 416344012323 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 416344012324 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344012325 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 416344012326 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 416344012327 substrate binding pocket [chemical binding]; other site 416344012328 membrane-bound complex binding site; other site 416344012329 hinge residues; other site 416344012330 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344012331 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 416344012332 substrate binding pocket [chemical binding]; other site 416344012333 membrane-bound complex binding site; other site 416344012334 hinge residues; other site 416344012335 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 416344012336 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 416344012337 conserved gate region; other site 416344012338 dimer interface [polypeptide binding]; other site 416344012339 putative PBP binding loops; other site 416344012340 ABC-ATPase subunit interface; other site 416344012341 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 416344012342 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416344012343 Walker A/P-loop; other site 416344012344 ATP binding site [chemical binding]; other site 416344012345 Q-loop/lid; other site 416344012346 ABC transporter signature motif; other site 416344012347 Walker B; other site 416344012348 D-loop; other site 416344012349 H-loop/switch region; other site 416344012350 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 416344012351 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 416344012352 active site 416344012353 non-prolyl cis peptide bond; other site 416344012354 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 416344012355 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 416344012356 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 416344012357 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344012358 substrate binding pocket [chemical binding]; other site 416344012359 membrane-bound complex binding site; other site 416344012360 hinge residues; other site 416344012361 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344012362 Coenzyme A binding pocket [chemical binding]; other site 416344012363 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 416344012364 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 416344012365 putative active site [active] 416344012366 Zn binding site [ion binding]; other site 416344012367 PAS domain; Region: PAS; smart00091 416344012368 PAS fold; Region: PAS_7; pfam12860 416344012369 putative active site [active] 416344012370 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344012371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344012372 metal binding site [ion binding]; metal-binding site 416344012373 active site 416344012374 I-site; other site 416344012375 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344012376 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 416344012377 trimer interface [polypeptide binding]; other site 416344012378 eyelet of channel; other site 416344012379 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 416344012380 DNA-binding site [nucleotide binding]; DNA binding site 416344012381 RNA-binding motif; other site 416344012382 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 416344012383 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 416344012384 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 416344012385 NMT1-like family; Region: NMT1_2; pfam13379 416344012386 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 416344012387 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 416344012388 Walker A/P-loop; other site 416344012389 ATP binding site [chemical binding]; other site 416344012390 Q-loop/lid; other site 416344012391 ABC transporter signature motif; other site 416344012392 Walker B; other site 416344012393 D-loop; other site 416344012394 H-loop/switch region; other site 416344012395 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 416344012396 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 416344012397 dimer interface [polypeptide binding]; other site 416344012398 ABC-ATPase subunit interface; other site 416344012399 putative PBP binding loops; other site 416344012400 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 416344012401 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344012402 DNA-binding site [nucleotide binding]; DNA binding site 416344012403 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 416344012404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344012405 homodimer interface [polypeptide binding]; other site 416344012406 catalytic residue [active] 416344012407 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344012408 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344012409 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 416344012410 tetramerization interface [polypeptide binding]; other site 416344012411 NAD(P) binding site [chemical binding]; other site 416344012412 catalytic residues [active] 416344012413 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344012414 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 416344012415 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344012416 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344012417 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 416344012418 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 416344012419 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344012420 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344012421 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 416344012422 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 416344012423 catalytic loop [active] 416344012424 iron binding site [ion binding]; other site 416344012425 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 416344012426 Uncharacterized conserved protein [Function unknown]; Region: COG1359 416344012427 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 416344012428 Prostaglandin dehydrogenases; Region: PGDH; cd05288 416344012429 NAD(P) binding site [chemical binding]; other site 416344012430 substrate binding site [chemical binding]; other site 416344012431 dimer interface [polypeptide binding]; other site 416344012432 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344012433 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344012434 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 416344012435 Protein export membrane protein; Region: SecD_SecF; cl14618 416344012436 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 416344012437 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344012438 Walker A/P-loop; other site 416344012439 ATP binding site [chemical binding]; other site 416344012440 Q-loop/lid; other site 416344012441 ABC transporter signature motif; other site 416344012442 Walker B; other site 416344012443 D-loop; other site 416344012444 H-loop/switch region; other site 416344012445 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416344012446 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344012447 Walker A/P-loop; other site 416344012448 ATP binding site [chemical binding]; other site 416344012449 Q-loop/lid; other site 416344012450 ABC transporter signature motif; other site 416344012451 Walker B; other site 416344012452 D-loop; other site 416344012453 H-loop/switch region; other site 416344012454 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416344012455 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 416344012456 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 416344012457 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 416344012458 dimer interface [polypeptide binding]; other site 416344012459 conserved gate region; other site 416344012460 putative PBP binding loops; other site 416344012461 ABC-ATPase subunit interface; other site 416344012462 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 416344012463 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 416344012464 dimer interface [polypeptide binding]; other site 416344012465 conserved gate region; other site 416344012466 putative PBP binding loops; other site 416344012467 ABC-ATPase subunit interface; other site 416344012468 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 416344012469 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 416344012470 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 416344012471 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 416344012472 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 416344012473 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 416344012474 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 416344012475 non-specific DNA binding site [nucleotide binding]; other site 416344012476 salt bridge; other site 416344012477 sequence-specific DNA binding site [nucleotide binding]; other site 416344012478 Cupin domain; Region: Cupin_2; pfam07883 416344012479 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 416344012480 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 416344012481 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 416344012482 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 416344012483 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 416344012484 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 416344012485 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 416344012486 transcriptional regulator; Provisional; Region: PRK10632 416344012487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012488 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 416344012489 putative effector binding pocket; other site 416344012490 dimerization interface [polypeptide binding]; other site 416344012491 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344012492 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 416344012493 tetramerization interface [polypeptide binding]; other site 416344012494 NAD(P) binding site [chemical binding]; other site 416344012495 catalytic residues [active] 416344012496 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 416344012497 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 416344012498 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 416344012499 NAD(P) binding site [chemical binding]; other site 416344012500 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 416344012501 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 416344012502 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 416344012503 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 416344012504 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 416344012505 hinge; other site 416344012506 active site 416344012507 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 416344012508 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 416344012509 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 416344012510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344012511 homodimer interface [polypeptide binding]; other site 416344012512 catalytic residue [active] 416344012513 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 416344012514 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 416344012515 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 416344012516 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 416344012517 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 416344012518 catalytic loop [active] 416344012519 iron binding site [ion binding]; other site 416344012520 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 416344012521 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344012522 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 416344012523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012524 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 416344012525 dimerization interface [polypeptide binding]; other site 416344012526 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 416344012527 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344012528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012529 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 416344012530 dimerization interface [polypeptide binding]; other site 416344012531 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 416344012532 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344012533 salt bridge; other site 416344012534 non-specific DNA binding site [nucleotide binding]; other site 416344012535 sequence-specific DNA binding site [nucleotide binding]; other site 416344012536 HipA N-terminal domain; Region: couple_hipA; TIGR03071 416344012537 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 416344012538 HipA-like N-terminal domain; Region: HipA_N; pfam07805 416344012539 HipA-like C-terminal domain; Region: HipA_C; pfam07804 416344012540 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 416344012541 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 416344012542 dimer interface [polypeptide binding]; other site 416344012543 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 416344012544 active site 416344012545 Fe binding site [ion binding]; other site 416344012546 shikimate transporter; Provisional; Region: PRK09952 416344012547 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 416344012548 putative substrate translocation pore; other site 416344012549 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 416344012550 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 416344012551 putative active site [active] 416344012552 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 416344012553 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 416344012554 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344012555 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 416344012556 DEAD/DEAH box helicase; Region: DEAD; pfam00270 416344012557 DEAD_2; Region: DEAD_2; pfam06733 416344012558 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 416344012559 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 416344012560 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 416344012561 FOG: CBS domain [General function prediction only]; Region: COG0517 416344012562 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 416344012563 PRC-barrel domain; Region: PRC; pfam05239 416344012564 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 416344012565 periplasmic protein; Provisional; Region: PRK10568 416344012566 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 416344012567 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 416344012568 putative active site [active] 416344012569 heme pocket [chemical binding]; other site 416344012570 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 416344012571 dimer interface [polypeptide binding]; other site 416344012572 phosphorylation site [posttranslational modification] 416344012573 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 416344012574 ATP binding site [chemical binding]; other site 416344012575 Mg2+ binding site [ion binding]; other site 416344012576 G-X-G motif; other site 416344012577 Response regulator receiver domain; Region: Response_reg; pfam00072 416344012578 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 416344012579 active site 416344012580 phosphorylation site [posttranslational modification] 416344012581 intermolecular recognition site; other site 416344012582 dimerization interface [polypeptide binding]; other site 416344012583 Cache domain; Region: Cache_1; pfam02743 416344012584 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 416344012585 dimerization interface [polypeptide binding]; other site 416344012586 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344012587 dimer interface [polypeptide binding]; other site 416344012588 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 416344012589 putative CheW interface [polypeptide binding]; other site 416344012590 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 416344012591 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 416344012592 Ligand Binding Site [chemical binding]; other site 416344012593 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 416344012594 Ligand Binding Site [chemical binding]; other site 416344012595 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416344012596 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 416344012597 active site residue [active] 416344012598 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 416344012599 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 416344012600 Ligand Binding Site [chemical binding]; other site 416344012601 PAS domain S-box; Region: sensory_box; TIGR00229 416344012602 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 416344012603 putative active site [active] 416344012604 heme pocket [chemical binding]; other site 416344012605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 416344012606 Histidine kinase; Region: HisKA_3; pfam07730 416344012607 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 416344012608 ATP binding site [chemical binding]; other site 416344012609 Mg2+ binding site [ion binding]; other site 416344012610 G-X-G motif; other site 416344012611 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344012612 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 416344012613 active site 416344012614 phosphorylation site [posttranslational modification] 416344012615 intermolecular recognition site; other site 416344012616 dimerization interface [polypeptide binding]; other site 416344012617 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 416344012618 DNA binding residues [nucleotide binding] 416344012619 dimerization interface [polypeptide binding]; other site 416344012620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 416344012621 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344012622 Transglycosylase; Region: Transgly; pfam00912 416344012623 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 416344012624 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 416344012625 Transcriptional regulators [Transcription]; Region: FadR; COG2186 416344012626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344012627 DNA-binding site [nucleotide binding]; DNA binding site 416344012628 FCD domain; Region: FCD; pfam07729 416344012629 ornithine cyclodeaminase; Validated; Region: PRK07340 416344012630 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 416344012631 Response regulator receiver domain; Region: Response_reg; pfam00072 416344012632 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 416344012633 active site 416344012634 phosphorylation site [posttranslational modification] 416344012635 intermolecular recognition site; other site 416344012636 dimerization interface [polypeptide binding]; other site 416344012637 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 416344012638 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 416344012639 ligand binding site [chemical binding]; other site 416344012640 flexible hinge region; other site 416344012641 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 416344012642 putative switch regulator; other site 416344012643 non-specific DNA interactions [nucleotide binding]; other site 416344012644 DNA binding site [nucleotide binding] 416344012645 sequence specific DNA binding site [nucleotide binding]; other site 416344012646 putative cAMP binding site [chemical binding]; other site 416344012647 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 416344012648 Protein of unknown function, DUF488; Region: DUF488; cl01246 416344012649 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 416344012650 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 416344012651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344012652 homodimer interface [polypeptide binding]; other site 416344012653 catalytic residue [active] 416344012654 aromatic amino acid transporter; Provisional; Region: PRK10238 416344012655 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344012656 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 416344012657 putative DNA binding site [nucleotide binding]; other site 416344012658 putative Zn2+ binding site [ion binding]; other site 416344012659 AsnC family; Region: AsnC_trans_reg; pfam01037 416344012660 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 416344012661 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 416344012662 EamA-like transporter family; Region: EamA; pfam00892 416344012663 Phosphoesterase family; Region: Phosphoesterase; pfam04185 416344012664 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 416344012665 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 416344012666 Methyltransferase domain; Region: Methyltransf_31; pfam13847 416344012667 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 416344012668 S-adenosylmethionine binding site [chemical binding]; other site 416344012669 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 416344012670 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 416344012671 putative ion selectivity filter; other site 416344012672 putative pore gating glutamate residue; other site 416344012673 cytosine deaminase; Provisional; Region: PRK09230 416344012674 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 416344012675 active site 416344012676 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_14; cd08355 416344012677 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344012678 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344012679 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 416344012680 trimer interface [polypeptide binding]; other site 416344012681 eyelet of channel; other site 416344012682 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344012683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344012684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012685 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 416344012686 putative effector binding pocket; other site 416344012687 dimerization interface [polypeptide binding]; other site 416344012688 Fusaric acid resistance protein family; Region: FUSC; pfam04632 416344012689 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 416344012690 SnoaL-like domain; Region: SnoaL_2; pfam12680 416344012691 Predicted permeases [General function prediction only]; Region: COG0679 416344012692 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 416344012693 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 416344012694 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 416344012695 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 416344012696 tetrameric interface [polypeptide binding]; other site 416344012697 NAD binding site [chemical binding]; other site 416344012698 catalytic residues [active] 416344012699 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 416344012700 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 416344012701 inhibitor-cofactor binding pocket; inhibition site 416344012702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344012703 catalytic residue [active] 416344012704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344012705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012706 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 416344012707 dimerization interface [polypeptide binding]; other site 416344012708 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 416344012709 Epoxide hydrolase N terminus; Region: EHN; pfam06441 416344012710 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344012711 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344012712 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 416344012713 conserved cys residue [active] 416344012714 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344012715 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 416344012716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344012717 NAD(P) binding site [chemical binding]; other site 416344012718 active site 416344012719 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 416344012720 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 416344012721 putative substrate translocation pore; other site 416344012722 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 416344012723 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344012724 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344012725 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344012726 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344012727 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344012728 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 416344012729 putative DNA binding site [nucleotide binding]; other site 416344012730 putative Zn2+ binding site [ion binding]; other site 416344012731 AsnC family; Region: AsnC_trans_reg; pfam01037 416344012732 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344012733 Predicted membrane protein [Function unknown]; Region: COG1238 416344012734 Cache domain; Region: Cache_1; pfam02743 416344012735 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344012736 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344012737 dimer interface [polypeptide binding]; other site 416344012738 putative CheW interface [polypeptide binding]; other site 416344012739 acyl-CoA synthetase; Validated; Region: PRK08162 416344012740 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 416344012741 acyl-activating enzyme (AAE) consensus motif; other site 416344012742 putative active site [active] 416344012743 AMP binding site [chemical binding]; other site 416344012744 putative CoA binding site [chemical binding]; other site 416344012745 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416344012746 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 416344012747 ligand binding site [chemical binding]; other site 416344012748 flexible hinge region; other site 416344012749 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 416344012750 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 416344012751 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 416344012752 active site 416344012753 phosphorylation site [posttranslational modification] 416344012754 intermolecular recognition site; other site 416344012755 dimerization interface [polypeptide binding]; other site 416344012756 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 416344012757 DNA binding site [nucleotide binding] 416344012758 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 416344012759 HAMP domain; Region: HAMP; pfam00672 416344012760 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 416344012761 dimer interface [polypeptide binding]; other site 416344012762 phosphorylation site [posttranslational modification] 416344012763 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 416344012764 ATP binding site [chemical binding]; other site 416344012765 Mg2+ binding site [ion binding]; other site 416344012766 G-X-G motif; other site 416344012767 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344012768 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 416344012769 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416344012770 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344012771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344012772 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 416344012773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344012774 NAD(P) binding site [chemical binding]; other site 416344012775 active site 416344012776 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 416344012777 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 416344012778 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416344012779 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 416344012780 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 416344012781 active site 416344012782 FMN binding site [chemical binding]; other site 416344012783 substrate binding site [chemical binding]; other site 416344012784 homotetramer interface [polypeptide binding]; other site 416344012785 catalytic residue [active] 416344012786 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 416344012787 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 416344012788 potential catalytic triad [active] 416344012789 conserved cys residue [active] 416344012790 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344012791 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344012792 DNA binding site [nucleotide binding] 416344012793 domain linker motif; other site 416344012794 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 416344012795 ligand binding site [chemical binding]; other site 416344012796 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 416344012797 active site 416344012798 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 416344012799 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 416344012800 substrate binding [chemical binding]; other site 416344012801 active site 416344012802 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 416344012803 short chain dehydrogenase; Provisional; Region: PRK06500 416344012804 classical (c) SDRs; Region: SDR_c; cd05233 416344012805 NAD(P) binding site [chemical binding]; other site 416344012806 active site 416344012807 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 416344012808 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344012809 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 416344012810 dimerization interface [polypeptide binding]; other site 416344012811 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344012812 DNA-binding site [nucleotide binding]; DNA binding site 416344012813 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 416344012814 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 416344012815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344012816 homodimer interface [polypeptide binding]; other site 416344012817 catalytic residue [active] 416344012818 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 416344012819 Uncharacterized conserved protein [Function unknown]; Region: COG2128 416344012820 Cupin domain; Region: Cupin_2; cl17218 416344012821 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344012822 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 416344012823 trimer interface [polypeptide binding]; other site 416344012824 eyelet of channel; other site 416344012825 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 416344012826 active site lid residues [active] 416344012827 substrate binding pocket [chemical binding]; other site 416344012828 catalytic residues [active] 416344012829 substrate-Mg2+ binding site; other site 416344012830 aspartate-rich region 1; other site 416344012831 aspartate-rich region 2; other site 416344012832 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 416344012833 active site residue [active] 416344012834 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 416344012835 active site residue [active] 416344012836 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 416344012837 active site residue [active] 416344012838 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 416344012839 active site residue [active] 416344012840 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 416344012841 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 416344012842 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 416344012843 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 416344012844 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 416344012845 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 416344012846 dimer interface [polypeptide binding]; other site 416344012847 active site 416344012848 non-prolyl cis peptide bond; other site 416344012849 insertion regions; other site 416344012850 hypothetical protein; Provisional; Region: PRK06208 416344012851 active site 416344012852 intersubunit interface [polypeptide binding]; other site 416344012853 Zn2+ binding site [ion binding]; other site 416344012854 NMT1-like family; Region: NMT1_2; pfam13379 416344012855 NMT1/THI5 like; Region: NMT1; pfam09084 416344012856 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 416344012857 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 416344012858 dimer interface [polypeptide binding]; other site 416344012859 conserved gate region; other site 416344012860 putative PBP binding loops; other site 416344012861 ABC-ATPase subunit interface; other site 416344012862 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 416344012863 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 416344012864 Walker A/P-loop; other site 416344012865 ATP binding site [chemical binding]; other site 416344012866 Q-loop/lid; other site 416344012867 ABC transporter signature motif; other site 416344012868 Walker B; other site 416344012869 D-loop; other site 416344012870 H-loop/switch region; other site 416344012871 Cytochrome c; Region: Cytochrom_C; pfam00034 416344012872 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 416344012873 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 416344012874 membrane-bound complex binding site; other site 416344012875 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 416344012876 MOSC domain; Region: MOSC; pfam03473 416344012877 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 416344012878 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 416344012879 active site 416344012880 phosphorylation site [posttranslational modification] 416344012881 intermolecular recognition site; other site 416344012882 dimerization interface [polypeptide binding]; other site 416344012883 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 416344012884 DNA binding site [nucleotide binding] 416344012885 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 416344012886 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416344012887 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 416344012888 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 416344012889 dimer interface [polypeptide binding]; other site 416344012890 conserved gate region; other site 416344012891 ABC-ATPase subunit interface; other site 416344012892 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 416344012893 dimer interface [polypeptide binding]; other site 416344012894 conserved gate region; other site 416344012895 putative PBP binding loops; other site 416344012896 ABC-ATPase subunit interface; other site 416344012897 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 416344012898 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 416344012899 Walker A/P-loop; other site 416344012900 ATP binding site [chemical binding]; other site 416344012901 Q-loop/lid; other site 416344012902 ABC transporter signature motif; other site 416344012903 Walker B; other site 416344012904 D-loop; other site 416344012905 H-loop/switch region; other site 416344012906 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344012907 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 416344012908 eyelet of channel; other site 416344012909 trimer interface [polypeptide binding]; other site 416344012910 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 416344012911 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 416344012912 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344012913 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344012914 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 416344012915 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 416344012916 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 416344012917 putative substrate binding pocket [chemical binding]; other site 416344012918 trimer interface [polypeptide binding]; other site 416344012919 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 416344012920 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 416344012921 putative active site [active] 416344012922 putative metal binding site [ion binding]; other site 416344012923 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 416344012924 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 416344012925 NAD binding site [chemical binding]; other site 416344012926 catalytic residues [active] 416344012927 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 416344012928 MarR family; Region: MarR_2; cl17246 416344012929 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344012930 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416344012931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344012932 NAD(P) binding site [chemical binding]; other site 416344012933 active site 416344012934 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 416344012935 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 416344012936 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416344012937 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 416344012938 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 416344012939 putative cation:proton antiport protein; Provisional; Region: PRK10669 416344012940 TrkA-N domain; Region: TrkA_N; pfam02254 416344012941 Cytochrome c; Region: Cytochrom_C; pfam00034 416344012942 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344012943 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344012944 Cytochrome c; Region: Cytochrom_C; pfam00034 416344012945 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 416344012946 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 416344012947 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 416344012948 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 416344012949 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 416344012950 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 416344012951 hexamer interface [polypeptide binding]; other site 416344012952 ligand binding site [chemical binding]; other site 416344012953 putative active site [active] 416344012954 NAD(P) binding site [chemical binding]; other site 416344012955 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 416344012956 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 416344012957 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344012958 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 416344012959 Bacterial sugar transferase; Region: Bac_transf; pfam02397 416344012960 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416344012961 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 416344012962 non-specific DNA interactions [nucleotide binding]; other site 416344012963 DNA binding site [nucleotide binding] 416344012964 sequence specific DNA binding site [nucleotide binding]; other site 416344012965 putative cAMP binding site [chemical binding]; other site 416344012966 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416344012967 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 416344012968 ligand binding site [chemical binding]; other site 416344012969 flexible hinge region; other site 416344012970 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 416344012971 acyl carrier protein; Provisional; Region: PRK07081 416344012972 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 416344012973 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 416344012974 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344012975 active site 416344012976 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 416344012977 dimer interface [polypeptide binding]; other site 416344012978 motif 1; other site 416344012979 active site 416344012980 motif 2; other site 416344012981 motif 3; other site 416344012982 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 416344012983 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 416344012984 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 416344012985 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 416344012986 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 416344012987 Walker A motif; other site 416344012988 ATP binding site [chemical binding]; other site 416344012989 Walker B motif; other site 416344012990 arginine finger; other site 416344012991 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344012992 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344012993 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 416344012994 putative ADP-binding pocket [chemical binding]; other site 416344012995 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416344012996 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 416344012997 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 416344012998 Substrate binding site; other site 416344012999 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 416344013000 Right handed beta helix region; Region: Beta_helix; pfam13229 416344013001 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 416344013002 tyrosine kinase; Provisional; Region: PRK11519 416344013003 Chain length determinant protein; Region: Wzz; cl15801 416344013004 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 416344013005 Chain length determinant protein; Region: Wzz; cl15801 416344013006 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 416344013007 Nucleotide binding site [chemical binding]; other site 416344013008 P loop; other site 416344013009 DTAP/Switch II; other site 416344013010 Switch I; other site 416344013011 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 416344013012 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 416344013013 SLBB domain; Region: SLBB; pfam10531 416344013014 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 416344013015 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 416344013016 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344013017 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 416344013018 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 416344013019 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 416344013020 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 416344013021 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 416344013022 CHASE3 domain; Region: CHASE3; pfam05227 416344013023 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 416344013024 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344013025 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344013026 dimer interface [polypeptide binding]; other site 416344013027 putative CheW interface [polypeptide binding]; other site 416344013028 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 416344013029 dimer interface [polypeptide binding]; other site 416344013030 phosphorylation site [posttranslational modification] 416344013031 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 416344013032 ATP binding site [chemical binding]; other site 416344013033 Mg2+ binding site [ion binding]; other site 416344013034 G-X-G motif; other site 416344013035 osmolarity response regulator; Provisional; Region: ompR; PRK09468 416344013036 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 416344013037 active site 416344013038 phosphorylation site [posttranslational modification] 416344013039 intermolecular recognition site; other site 416344013040 dimerization interface [polypeptide binding]; other site 416344013041 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 416344013042 DNA binding site [nucleotide binding] 416344013043 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 416344013044 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344013045 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344013046 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344013047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344013048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013049 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 416344013050 substrate binding pocket [chemical binding]; other site 416344013051 dimerization interface [polypeptide binding]; other site 416344013052 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 416344013053 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 416344013054 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 416344013055 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344013056 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 416344013057 active site 416344013058 metal binding site [ion binding]; metal-binding site 416344013059 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 416344013060 CoA-transferase family III; Region: CoA_transf_3; pfam02515 416344013061 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 416344013062 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 416344013063 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 416344013064 shikimate binding site; other site 416344013065 NAD(P) binding site [chemical binding]; other site 416344013066 HAMP domain; Region: HAMP; pfam00672 416344013067 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344013068 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344013069 dimer interface [polypeptide binding]; other site 416344013070 putative CheW interface [polypeptide binding]; other site 416344013071 Uncharacterized conserved protein [Function unknown]; Region: COG1739 416344013072 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 416344013073 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 416344013074 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 416344013075 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 416344013076 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 416344013077 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 416344013078 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 416344013079 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 416344013080 ATP binding site [chemical binding]; other site 416344013081 putative Mg++ binding site [ion binding]; other site 416344013082 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 416344013083 nucleotide binding region [chemical binding]; other site 416344013084 ATP-binding site [chemical binding]; other site 416344013085 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 416344013086 DEAD/H associated; Region: DEAD_assoc; pfam08494 416344013087 putative transporter; Provisional; Region: PRK11021 416344013088 putative transporter; Provisional; Region: PRK11021 416344013089 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 416344013090 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013091 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 416344013092 dimerization interface [polypeptide binding]; other site 416344013093 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344013094 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 416344013095 non-specific DNA binding site [nucleotide binding]; other site 416344013096 salt bridge; other site 416344013097 sequence-specific DNA binding site [nucleotide binding]; other site 416344013098 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 416344013099 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 416344013100 heterodimer interface [polypeptide binding]; other site 416344013101 multimer interface [polypeptide binding]; other site 416344013102 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 416344013103 active site 416344013104 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha 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_alpha; cd03463 416344013105 heterodimer interface [polypeptide binding]; other site 416344013106 active site 416344013107 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 416344013108 Acyltransferase family; Region: Acyl_transf_3; pfam01757 416344013109 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344013110 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344013111 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 416344013112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344013113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013114 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 416344013115 putative effector binding pocket; other site 416344013116 dimerization interface [polypeptide binding]; other site 416344013117 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 416344013118 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 416344013119 putative substrate translocation pore; other site 416344013120 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 416344013121 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344013122 MarR family; Region: MarR_2; pfam12802 416344013123 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 416344013124 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 416344013125 ligand binding site; other site 416344013126 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 416344013127 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344013128 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344013129 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344013130 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 416344013131 SxDxEG motif; other site 416344013132 active site 416344013133 metal binding site [ion binding]; metal-binding site 416344013134 homopentamer interface [polypeptide binding]; other site 416344013135 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 416344013136 homodimer interface [polypeptide binding]; other site 416344013137 homotetramer interface [polypeptide binding]; other site 416344013138 active site pocket [active] 416344013139 cleavage site 416344013140 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 416344013141 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 416344013142 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 416344013143 dimer interface [polypeptide binding]; other site 416344013144 conserved gate region; other site 416344013145 putative PBP binding loops; other site 416344013146 ABC-ATPase subunit interface; other site 416344013147 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 416344013148 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 416344013149 dimer interface [polypeptide binding]; other site 416344013150 conserved gate region; other site 416344013151 putative PBP binding loops; other site 416344013152 ABC-ATPase subunit interface; other site 416344013153 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 416344013154 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 416344013155 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 416344013156 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344013157 Walker A/P-loop; other site 416344013158 ATP binding site [chemical binding]; other site 416344013159 Q-loop/lid; other site 416344013160 ABC transporter signature motif; other site 416344013161 Walker B; other site 416344013162 D-loop; other site 416344013163 H-loop/switch region; other site 416344013164 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416344013165 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344013166 Walker A/P-loop; other site 416344013167 ATP binding site [chemical binding]; other site 416344013168 Q-loop/lid; other site 416344013169 ABC transporter signature motif; other site 416344013170 Walker B; other site 416344013171 D-loop; other site 416344013172 H-loop/switch region; other site 416344013173 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 416344013174 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 416344013175 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 416344013176 catalytic nucleophile [active] 416344013177 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416344013178 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416344013179 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 416344013180 putative active site [active] 416344013181 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 416344013182 Autotransporter beta-domain; Region: Autotransporter; pfam03797 416344013183 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 416344013184 Methyltransferase domain; Region: Methyltransf_31; pfam13847 416344013185 S-adenosylmethionine binding site [chemical binding]; other site 416344013186 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 416344013187 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416344013188 active site 416344013189 metal binding site [ion binding]; metal-binding site 416344013190 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 416344013191 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416344013192 MULE transposase domain; Region: MULE; pfam10551 416344013193 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 416344013194 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344013195 DNA-binding site [nucleotide binding]; DNA binding site 416344013196 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 416344013197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344013198 homodimer interface [polypeptide binding]; other site 416344013199 catalytic residue [active] 416344013200 Predicted transporter component [General function prediction only]; Region: COG2391 416344013201 Sulphur transport; Region: Sulf_transp; pfam04143 416344013202 Predicted transporter component [General function prediction only]; Region: COG2391 416344013203 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 416344013204 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 416344013205 dimerization interface [polypeptide binding]; other site 416344013206 putative DNA binding site [nucleotide binding]; other site 416344013207 putative Zn2+ binding site [ion binding]; other site 416344013208 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 416344013209 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 416344013210 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344013211 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416344013212 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344013213 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 416344013214 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 416344013215 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 416344013216 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 416344013217 dimer interface [polypeptide binding]; other site 416344013218 NADP binding site [chemical binding]; other site 416344013219 catalytic residues [active] 416344013220 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 416344013221 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 416344013222 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 416344013223 Bacterial SH3 domain; Region: SH3_3; pfam08239 416344013224 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 416344013225 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 416344013226 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344013227 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 416344013228 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 416344013229 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 416344013230 DNA binding residues [nucleotide binding] 416344013231 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 416344013232 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 416344013233 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 416344013234 DNA binding residues [nucleotide binding] 416344013235 putative dimer interface [polypeptide binding]; other site 416344013236 putative metal binding residues [ion binding]; other site 416344013237 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 416344013238 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 416344013239 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 416344013240 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 416344013241 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 416344013242 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 416344013243 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 416344013244 active site 416344013245 metal-binding site 416344013246 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 416344013247 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 416344013248 tetramer interface [polypeptide binding]; other site 416344013249 active site 416344013250 Mg2+/Mn2+ binding site [ion binding]; other site 416344013251 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 416344013252 active site 416344013253 metal-binding site 416344013254 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416344013255 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 416344013256 PYR/PP interface [polypeptide binding]; other site 416344013257 dimer interface [polypeptide binding]; other site 416344013258 TPP binding site [chemical binding]; other site 416344013259 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 416344013260 TPP-binding site; other site 416344013261 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 416344013262 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 416344013263 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344013264 catalytic residue [active] 416344013265 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 416344013266 dimerization interface [polypeptide binding]; other site 416344013267 putative DNA binding site [nucleotide binding]; other site 416344013268 putative Zn2+ binding site [ion binding]; other site 416344013269 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 416344013270 Low molecular weight phosphatase family; Region: LMWPc; cd00115 416344013271 active site 416344013272 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 416344013273 arsenical-resistance protein; Region: acr3; TIGR00832 416344013274 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 416344013275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344013276 Coenzyme A binding pocket [chemical binding]; other site 416344013277 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 416344013278 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 416344013279 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 416344013280 P loop; other site 416344013281 Nucleotide binding site [chemical binding]; other site 416344013282 DTAP/Switch II; other site 416344013283 Switch I; other site 416344013284 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 416344013285 DTAP/Switch II; other site 416344013286 Switch I; other site 416344013287 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416344013288 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 416344013289 putative C-terminal domain interface [polypeptide binding]; other site 416344013290 putative GSH binding site (G-site) [chemical binding]; other site 416344013291 putative dimer interface [polypeptide binding]; other site 416344013292 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 416344013293 putative N-terminal domain interface [polypeptide binding]; other site 416344013294 putative dimer interface [polypeptide binding]; other site 416344013295 putative substrate binding pocket (H-site) [chemical binding]; other site 416344013296 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344013297 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344013298 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 416344013299 TAP-like protein; Region: Abhydrolase_4; pfam08386 416344013300 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 416344013301 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 416344013302 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 416344013303 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 416344013304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 416344013305 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 416344013306 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 416344013307 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 416344013308 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 416344013309 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 416344013310 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 416344013311 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 416344013312 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 416344013313 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 416344013314 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 416344013315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 416344013316 Uncharacterized conserved protein [Function unknown]; Region: COG2308 416344013317 cell density-dependent motility repressor; Provisional; Region: PRK10082 416344013318 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013319 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 416344013320 dimerization interface [polypeptide binding]; other site 416344013321 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 416344013322 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 416344013323 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 416344013324 putative active site [active] 416344013325 putative metal binding site [ion binding]; other site 416344013326 N-glycosyltransferase; Provisional; Region: PRK11204 416344013327 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 416344013328 DXD motif; other site 416344013329 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 416344013330 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 416344013331 glutaminase active site [active] 416344013332 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 416344013333 dimer interface [polypeptide binding]; other site 416344013334 active site 416344013335 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 416344013336 dimer interface [polypeptide binding]; other site 416344013337 active site 416344013338 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 416344013339 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344013340 Cytochrome c; Region: Cytochrom_C; pfam00034 416344013341 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 416344013342 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 416344013343 oligomeric interface; other site 416344013344 putative active site [active] 416344013345 homodimer interface [polypeptide binding]; other site 416344013346 peroxiredoxin; Region: AhpC; TIGR03137 416344013347 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 416344013348 dimer interface [polypeptide binding]; other site 416344013349 decamer (pentamer of dimers) interface [polypeptide binding]; other site 416344013350 catalytic triad [active] 416344013351 peroxidatic and resolving cysteines [active] 416344013352 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 416344013353 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 416344013354 catalytic residue [active] 416344013355 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 416344013356 catalytic residues [active] 416344013357 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344013358 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344013359 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 416344013360 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 416344013361 hypothetical protein; Provisional; Region: PRK07483 416344013362 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 416344013363 inhibitor-cofactor binding pocket; inhibition site 416344013364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344013365 catalytic residue [active] 416344013366 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 416344013367 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 416344013368 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344013369 Walker A/P-loop; other site 416344013370 ATP binding site [chemical binding]; other site 416344013371 Q-loop/lid; other site 416344013372 ABC transporter signature motif; other site 416344013373 Walker B; other site 416344013374 D-loop; other site 416344013375 H-loop/switch region; other site 416344013376 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 416344013377 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 416344013378 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344013379 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 416344013380 substrate binding pocket [chemical binding]; other site 416344013381 membrane-bound complex binding site; other site 416344013382 hinge residues; other site 416344013383 MAPEG family; Region: MAPEG; cl09190 416344013384 alanine racemase; Reviewed; Region: dadX; PRK03646 416344013385 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 416344013386 active site 416344013387 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416344013388 substrate binding site [chemical binding]; other site 416344013389 catalytic residues [active] 416344013390 dimer interface [polypeptide binding]; other site 416344013391 enoyl-CoA hydratase; Validated; Region: PRK08139 416344013392 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 416344013393 substrate binding site [chemical binding]; other site 416344013394 oxyanion hole (OAH) forming residues; other site 416344013395 trimer interface [polypeptide binding]; other site 416344013396 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 416344013397 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 416344013398 active site 416344013399 phosphorylation site [posttranslational modification] 416344013400 intermolecular recognition site; other site 416344013401 dimerization interface [polypeptide binding]; other site 416344013402 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 416344013403 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344013404 putative CheW interface [polypeptide binding]; other site 416344013405 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 416344013406 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 416344013407 dimerization interface [polypeptide binding]; other site 416344013408 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 416344013409 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 416344013410 putative binding surface; other site 416344013411 active site 416344013412 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 416344013413 ATP binding site [chemical binding]; other site 416344013414 Mg2+ binding site [ion binding]; other site 416344013415 G-X-G motif; other site 416344013416 Predicted esterase [General function prediction only]; Region: COG0400 416344013417 putative hydrolase; Provisional; Region: PRK11460 416344013418 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416344013419 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 416344013420 Aspartase; Region: Aspartase; cd01357 416344013421 active sites [active] 416344013422 tetramer interface [polypeptide binding]; other site 416344013423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013424 transcriptional activator TtdR; Provisional; Region: PRK09801 416344013425 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 416344013426 putative effector binding pocket; other site 416344013427 dimerization interface [polypeptide binding]; other site 416344013428 L-asparaginase II; Region: Asparaginase_II; pfam06089 416344013429 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 416344013430 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 416344013431 N-terminal plug; other site 416344013432 ligand-binding site [chemical binding]; other site 416344013433 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 416344013434 Protein of unknown function (DUF969); Region: DUF969; pfam06149 416344013435 Response regulator receiver domain; Region: Response_reg; pfam00072 416344013436 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 416344013437 active site 416344013438 phosphorylation site [posttranslational modification] 416344013439 intermolecular recognition site; other site 416344013440 dimerization interface [polypeptide binding]; other site 416344013441 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344013442 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344013443 metal binding site [ion binding]; metal-binding site 416344013444 active site 416344013445 I-site; other site 416344013446 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 416344013447 GAF domain; Region: GAF; pfam01590 416344013448 PAS domain S-box; Region: sensory_box; TIGR00229 416344013449 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 416344013450 putative active site [active] 416344013451 heme pocket [chemical binding]; other site 416344013452 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344013453 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344013454 metal binding site [ion binding]; metal-binding site 416344013455 active site 416344013456 I-site; other site 416344013457 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 416344013458 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344013459 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013460 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 416344013461 dimerization interface [polypeptide binding]; other site 416344013462 shikimate transporter; Provisional; Region: PRK09952 416344013463 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 416344013464 putative substrate translocation pore; other site 416344013465 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 416344013466 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 416344013467 tetrameric interface [polypeptide binding]; other site 416344013468 NAD binding site [chemical binding]; other site 416344013469 catalytic residues [active] 416344013470 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416344013471 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 416344013472 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 416344013473 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 416344013474 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 416344013475 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344013476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013477 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 416344013478 putative substrate binding pocket [chemical binding]; other site 416344013479 putative dimerization interface [polypeptide binding]; other site 416344013480 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 416344013481 putative substrate translocation pore; other site 416344013482 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 416344013483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344013484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013485 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 416344013486 dimerization interface [polypeptide binding]; other site 416344013487 substrate binding pocket [chemical binding]; other site 416344013488 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 416344013489 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 416344013490 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 416344013491 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 416344013492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 416344013493 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 416344013494 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 416344013495 substrate binding pocket [chemical binding]; other site 416344013496 membrane-bound complex binding site; other site 416344013497 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 416344013498 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 416344013499 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 416344013500 putative active site [active] 416344013501 metal binding site [ion binding]; metal-binding site 416344013502 Uncharacterized conserved protein [Function unknown]; Region: COG1359 416344013503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344013504 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 416344013505 NAD(P) binding site [chemical binding]; other site 416344013506 active site 416344013507 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 416344013508 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013509 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 416344013510 dimerization interface [polypeptide binding]; other site 416344013511 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 416344013512 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 416344013513 nudix motif; other site 416344013514 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 416344013515 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344013516 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 416344013517 active site 416344013518 phosphorylation site [posttranslational modification] 416344013519 intermolecular recognition site; other site 416344013520 dimerization interface [polypeptide binding]; other site 416344013521 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 416344013522 DNA binding site [nucleotide binding] 416344013523 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 416344013524 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 416344013525 PAS domain; Region: PAS_9; pfam13426 416344013526 putative active site [active] 416344013527 heme pocket [chemical binding]; other site 416344013528 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344013529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344013530 metal binding site [ion binding]; metal-binding site 416344013531 active site 416344013532 I-site; other site 416344013533 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 416344013534 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416344013535 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 416344013536 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344013537 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344013538 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344013539 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 416344013540 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 416344013541 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 416344013542 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344013543 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 416344013544 dimerization interface [polypeptide binding]; other site 416344013545 substrate binding pocket [chemical binding]; other site 416344013546 acetoacetate decarboxylase; Provisional; Region: PRK02265 416344013547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344013548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013549 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 416344013550 putative dimerization interface [polypeptide binding]; other site 416344013551 transcriptional regulator; Provisional; Region: PRK10632 416344013552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013553 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 416344013554 putative effector binding pocket; other site 416344013555 dimerization interface [polypeptide binding]; other site 416344013556 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 416344013557 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344013558 SurA N-terminal domain; Region: SurA_N; pfam09312 416344013559 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344013560 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 416344013561 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 416344013562 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 416344013563 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 416344013564 Ligand binding site [chemical binding]; other site 416344013565 Electron transfer flavoprotein domain; Region: ETF; pfam01012 416344013566 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 416344013567 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344013568 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 416344013569 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 416344013570 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 416344013571 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344013572 active site 416344013573 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 416344013574 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 416344013575 CoA-transferase family III; Region: CoA_transf_3; pfam02515 416344013576 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 416344013577 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 416344013578 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 416344013579 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 416344013580 substrate binding site [chemical binding]; other site 416344013581 oxyanion hole (OAH) forming residues; other site 416344013582 trimer interface [polypeptide binding]; other site 416344013583 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 416344013584 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 416344013585 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 416344013586 G1 box; other site 416344013587 putative GEF interaction site [polypeptide binding]; other site 416344013588 GTP/Mg2+ binding site [chemical binding]; other site 416344013589 Switch I region; other site 416344013590 G2 box; other site 416344013591 G3 box; other site 416344013592 Switch II region; other site 416344013593 G4 box; other site 416344013594 G5 box; other site 416344013595 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 416344013596 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 416344013597 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 416344013598 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 416344013599 selenocysteine synthase; Provisional; Region: PRK04311 416344013600 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 416344013601 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 416344013602 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344013603 catalytic residue [active] 416344013604 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 416344013605 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 416344013606 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 416344013607 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 416344013608 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 416344013609 4Fe-4S binding domain; Region: Fer4; cl02805 416344013610 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 416344013611 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 416344013612 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 416344013613 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 416344013614 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 416344013615 molybdopterin cofactor binding site; other site 416344013616 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 416344013617 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344013618 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 416344013619 trimer interface [polypeptide binding]; other site 416344013620 eyelet of channel; other site 416344013621 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 416344013622 dimer interface [polypeptide binding]; other site 416344013623 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 416344013624 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 416344013625 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 416344013626 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 416344013627 active site 416344013628 tetramer interface; other site 416344013629 Acyltransferase family; Region: Acyl_transf_3; pfam01757 416344013630 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 416344013631 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344013632 putative ADP-binding pocket [chemical binding]; other site 416344013633 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 416344013634 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344013635 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 416344013636 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 416344013637 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 416344013638 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 416344013639 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 416344013640 NADP-binding site; other site 416344013641 homotetramer interface [polypeptide binding]; other site 416344013642 substrate binding site [chemical binding]; other site 416344013643 homodimer interface [polypeptide binding]; other site 416344013644 active site 416344013645 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416344013646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344013647 NAD(P) binding site [chemical binding]; other site 416344013648 active site 416344013649 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 416344013650 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 416344013651 homodimer interface [polypeptide binding]; other site 416344013652 substrate-cofactor binding pocket; other site 416344013653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344013654 catalytic residue [active] 416344013655 amidophosphoribosyltransferase; Provisional; Region: PRK09246 416344013656 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 416344013657 active site 416344013658 tetramer interface [polypeptide binding]; other site 416344013659 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416344013660 active site 416344013661 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 416344013662 Colicin V production protein; Region: Colicin_V; pfam02674 416344013663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 416344013664 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 416344013665 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416344013666 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416344013667 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 416344013668 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 416344013669 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 416344013670 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 416344013671 substrate binding site [chemical binding]; other site 416344013672 active site 416344013673 catalytic residues [active] 416344013674 heterodimer interface [polypeptide binding]; other site 416344013675 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 416344013676 DNA methylase; Region: N6_N4_Mtase; pfam01555 416344013677 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 416344013678 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 416344013679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344013680 catalytic residue [active] 416344013681 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 416344013682 active site 416344013683 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 416344013684 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 416344013685 dimerization interface 3.5A [polypeptide binding]; other site 416344013686 active site 416344013687 FimV N-terminal domain; Region: FimV_core; TIGR03505 416344013688 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 416344013689 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 416344013690 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 416344013691 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 416344013692 tartrate dehydrogenase; Region: TTC; TIGR02089 416344013693 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 416344013694 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 416344013695 substrate binding site [chemical binding]; other site 416344013696 Predicted small secreted protein [Function unknown]; Region: COG5510 416344013697 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 416344013698 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 416344013699 substrate binding site [chemical binding]; other site 416344013700 ligand binding site [chemical binding]; other site 416344013701 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 416344013702 Sel1-like repeats; Region: SEL1; smart00671 416344013703 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 416344013704 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 416344013705 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 416344013706 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 416344013707 putative active site [active] 416344013708 catalytic site [active] 416344013709 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416344013710 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 416344013711 DNA-binding interface [nucleotide binding]; DNA binding site 416344013712 Integrase core domain; Region: rve; pfam00665 416344013713 transposase/IS protein; Provisional; Region: PRK09183 416344013714 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 416344013715 Walker A motif; other site 416344013716 ATP binding site [chemical binding]; other site 416344013717 Walker B motif; other site 416344013718 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 416344013719 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 416344013720 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 416344013721 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 416344013722 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 416344013723 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 416344013724 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 416344013725 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344013726 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 416344013727 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 416344013728 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344013729 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344013730 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 416344013731 Protein of unknown function (DUF877); Region: DUF877; pfam05943 416344013732 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 416344013733 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 416344013734 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 416344013735 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 416344013736 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344013737 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 416344013738 eyelet of channel; other site 416344013739 trimer interface [polypeptide binding]; other site 416344013740 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 416344013741 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 416344013742 active site 416344013743 non-prolyl cis peptide bond; other site 416344013744 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 416344013745 dimer interface [polypeptide binding]; other site 416344013746 conserved gate region; other site 416344013747 putative PBP binding loops; other site 416344013748 ABC-ATPase subunit interface; other site 416344013749 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 416344013750 putative PBP binding loops; other site 416344013751 dimer interface [polypeptide binding]; other site 416344013752 ABC-ATPase subunit interface; other site 416344013753 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 416344013754 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344013755 substrate binding pocket [chemical binding]; other site 416344013756 membrane-bound complex binding site; other site 416344013757 hinge residues; other site 416344013758 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344013759 threonine dehydratase; Reviewed; Region: PRK09224 416344013760 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 416344013761 tetramer interface [polypeptide binding]; other site 416344013762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344013763 catalytic residue [active] 416344013764 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 416344013765 putative Ile/Val binding site [chemical binding]; other site 416344013766 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 416344013767 putative Ile/Val binding site [chemical binding]; other site 416344013768 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 416344013769 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 416344013770 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 416344013771 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344013772 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 416344013773 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344013774 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344013775 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 416344013776 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344013777 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 416344013778 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 416344013779 acyl-activating enzyme (AAE) consensus motif; other site 416344013780 AMP binding site [chemical binding]; other site 416344013781 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344013782 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 416344013783 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 416344013784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344013785 catalytic residue [active] 416344013786 argininosuccinate lyase; Provisional; Region: PRK02186 416344013787 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 416344013788 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 416344013789 active sites [active] 416344013790 tetramer interface [polypeptide binding]; other site 416344013791 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 416344013792 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 416344013793 putative active site [active] 416344013794 putative cosubstrate binding site; other site 416344013795 putative substrate binding site [chemical binding]; other site 416344013796 catalytic site [active] 416344013797 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344013798 D-aminoacyl-tRNA deacylase; Region: tRNA_deacylase; cl00716 416344013799 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344013800 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344013801 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 416344013802 HAMP domain; Region: HAMP; pfam00672 416344013803 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344013804 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344013805 dimer interface [polypeptide binding]; other site 416344013806 putative CheW interface [polypeptide binding]; other site 416344013807 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 416344013808 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 416344013809 Ion channel; Region: Ion_trans_2; pfam07885 416344013810 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 416344013811 TrkA-N domain; Region: TrkA_N; pfam02254 416344013812 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344013813 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416344013814 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 416344013815 dimanganese center [ion binding]; other site 416344013816 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 416344013817 dinuclear metal binding motif [ion binding]; other site 416344013818 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 416344013819 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 416344013820 ring oligomerisation interface [polypeptide binding]; other site 416344013821 ATP/Mg binding site [chemical binding]; other site 416344013822 stacking interactions; other site 416344013823 hinge regions; other site 416344013824 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 416344013825 oligomerisation interface [polypeptide binding]; other site 416344013826 mobile loop; other site 416344013827 roof hairpin; other site 416344013828 BetR domain; Region: BetR; pfam08667 416344013829 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 416344013830 active site 416344013831 phosphorylation site [posttranslational modification] 416344013832 intermolecular recognition site; other site 416344013833 dimerization interface [polypeptide binding]; other site 416344013834 Part of AAA domain; Region: AAA_19; pfam13245 416344013835 Family description; Region: UvrD_C_2; pfam13538 416344013836 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 416344013837 dimer interface [polypeptide binding]; other site 416344013838 ligand binding site [chemical binding]; other site 416344013839 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 416344013840 dimerization interface [polypeptide binding]; other site 416344013841 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344013842 dimer interface [polypeptide binding]; other site 416344013843 putative CheW interface [polypeptide binding]; other site 416344013844 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344013845 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 416344013846 putative substrate translocation pore; other site 416344013847 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 416344013848 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 416344013849 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 416344013850 NADP binding site [chemical binding]; other site 416344013851 dimer interface [polypeptide binding]; other site 416344013852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344013853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344013854 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 416344013855 dimerization interface [polypeptide binding]; other site 416344013856 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 416344013857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416344013858 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 416344013859 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416344013860 DNA binding residues [nucleotide binding] 416344013861 putative dimer interface [polypeptide binding]; other site 416344013862 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 416344013863 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 416344013864 substrate binding pocket [chemical binding]; other site 416344013865 membrane-bound complex binding site; other site 416344013866 hinge residues; other site 416344013867 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 416344013868 oligomer interface [polypeptide binding]; other site 416344013869 putative active site [active] 416344013870 Mn binding site [ion binding]; other site 416344013871 YhhN-like protein; Region: YhhN; pfam07947 416344013872 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 416344013873 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 416344013874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344013875 short chain dehydrogenase; Provisional; Region: PRK07832 416344013876 NAD(P) binding site [chemical binding]; other site 416344013877 active site 416344013878 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 416344013879 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 416344013880 Urea transporter; Region: UT; cl01829 416344013881 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 416344013882 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 416344013883 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 416344013884 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 416344013885 amidase; Provisional; Region: PRK07486 416344013886 Amidase; Region: Amidase; cl11426 416344013887 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 416344013888 pseudoazurin; Region: pseudoazurin; TIGR02375 416344013889 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 416344013890 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 416344013891 heme binding site [chemical binding]; other site 416344013892 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 416344013893 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 416344013894 Ligand Binding Site [chemical binding]; other site 416344013895 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 416344013896 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416344013897 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 416344013898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 416344013899 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 416344013900 trimer interface [polypeptide binding]; other site 416344013901 putative Zn binding site [ion binding]; other site 416344013902 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 416344013903 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 416344013904 catalytic loop [active] 416344013905 iron binding site [ion binding]; other site 416344013906 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 416344013907 FAD binding pocket [chemical binding]; other site 416344013908 conserved FAD binding motif [chemical binding]; other site 416344013909 phosphate binding motif [ion binding]; other site 416344013910 beta-alpha-beta structure motif; other site 416344013911 NAD binding pocket [chemical binding]; other site 416344013912 hybrid cluster protein; Provisional; Region: PRK05290 416344013913 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 416344013914 ACS interaction site; other site 416344013915 CODH interaction site; other site 416344013916 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 416344013917 hybrid metal cluster; other site 416344013918 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 416344013919 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 416344013920 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 416344013921 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 416344013922 protein binding site [polypeptide binding]; other site 416344013923 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 416344013924 protein binding site [polypeptide binding]; other site 416344013925 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 416344013926 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 416344013927 Gram-negative bacterial tonB protein; Region: TonB; cl10048 416344013928 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 416344013929 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 416344013930 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 416344013931 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 416344013932 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 416344013933 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 416344013934 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 416344013935 Surface antigen; Region: Bac_surface_Ag; pfam01103 416344013936 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 416344013937 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 416344013938 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 416344013939 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 416344013940 FecR protein; Region: FecR; pfam04773 416344013941 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 416344013942 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 416344013943 Secretin and TonB N terminus short domain; Region: STN; smart00965 416344013944 TonB C terminal; Region: TonB_2; pfam13103 416344013945 type II secretion system protein F; Region: GspF; TIGR02120 416344013946 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344013947 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344013948 PBP superfamily domain; Region: PBP_like_2; cl17296 416344013949 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 416344013950 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 416344013951 Tetratricopeptide repeat; Region: TPR_16; pfam13432 416344013952 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 416344013953 TPR motif; other site 416344013954 binding surface 416344013955 TPR repeat; Region: TPR_11; pfam13414 416344013956 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 416344013957 TPR motif; other site 416344013958 binding surface 416344013959 TPR repeat; Region: TPR_11; pfam13414 416344013960 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 416344013961 binding surface 416344013962 TPR motif; other site 416344013963 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 416344013964 TPR motif; other site 416344013965 binding surface 416344013966 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 416344013967 binding surface 416344013968 TPR motif; other site 416344013969 TPR repeat; Region: TPR_11; pfam13414 416344013970 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 416344013971 binding surface 416344013972 TPR motif; other site 416344013973 TPR repeat; Region: TPR_11; pfam13414 416344013974 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 416344013975 TPR motif; other site 416344013976 binding surface 416344013977 TPR repeat; Region: TPR_11; pfam13414 416344013978 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 416344013979 TPR motif; other site 416344013980 binding surface 416344013981 TPR repeat; Region: TPR_11; pfam13414 416344013982 TPR repeat; Region: TPR_11; pfam13414 416344013983 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 416344013984 TPR motif; other site 416344013985 binding surface 416344013986 TPR repeat; Region: TPR_11; pfam13414 416344013987 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 416344013988 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 416344013989 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 416344013990 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 416344013991 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 416344013992 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416344013993 putative active site [active] 416344013994 putative metal binding site [ion binding]; other site 416344013995 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 416344013996 MgtC family; Region: MgtC; pfam02308 416344013997 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 416344013998 Autoinducer binding domain; Region: Autoind_bind; pfam03472 416344013999 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 416344014000 DNA binding residues [nucleotide binding] 416344014001 dimerization interface [polypeptide binding]; other site 416344014002 Autoinducer synthetase; Region: Autoind_synth; cl17404 416344014003 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 416344014004 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 416344014005 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 416344014006 Phage holin family 2; Region: Phage_holin_2; pfam04550 416344014007 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 416344014008 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 416344014009 dimerization interface [polypeptide binding]; other site 416344014010 active site 416344014011 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 416344014012 FOG: CBS domain [General function prediction only]; Region: COG0517 416344014013 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344014014 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 416344014015 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 416344014016 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344014017 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 416344014018 trimer interface [polypeptide binding]; other site 416344014019 eyelet of channel; other site 416344014020 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 416344014021 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 416344014022 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416344014023 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416344014024 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 416344014025 putative active site [active] 416344014026 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 416344014027 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 416344014028 Walker A/P-loop; other site 416344014029 ATP binding site [chemical binding]; other site 416344014030 Q-loop/lid; other site 416344014031 ABC transporter signature motif; other site 416344014032 Walker B; other site 416344014033 D-loop; other site 416344014034 H-loop/switch region; other site 416344014035 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 416344014036 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 416344014037 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 416344014038 dimer interface [polypeptide binding]; other site 416344014039 conserved gate region; other site 416344014040 putative PBP binding loops; other site 416344014041 ABC-ATPase subunit interface; other site 416344014042 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 416344014043 putative PBP binding loops; other site 416344014044 dimer interface [polypeptide binding]; other site 416344014045 ABC-ATPase subunit interface; other site 416344014046 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 416344014047 nucleophile elbow; other site 416344014048 Patatin phospholipase; Region: DUF3734; pfam12536 416344014049 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 416344014050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344014051 NAD(P) binding site [chemical binding]; other site 416344014052 active site 416344014053 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344014054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344014055 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 416344014056 dimerization interface [polypeptide binding]; other site 416344014057 substrate binding pocket [chemical binding]; other site 416344014058 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416344014059 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 416344014060 Transposase; Region: DEDD_Tnp_IS110; pfam01548 416344014061 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 416344014062 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 416344014063 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 416344014064 putative active site [active] 416344014065 putative NTP binding site [chemical binding]; other site 416344014066 putative nucleic acid binding site [nucleotide binding]; other site 416344014067 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 416344014068 Transposase domain (DUF772); Region: DUF772; pfam05598 416344014069 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 416344014070 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416344014071 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 416344014072 ligand binding site [chemical binding]; other site 416344014073 flexible hinge region; other site 416344014074 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 416344014075 PRC-barrel domain; Region: PRC; pfam05239 416344014076 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 416344014077 PRC-barrel domain; Region: PRC; pfam05239 416344014078 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 416344014079 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 416344014080 TPP-binding site [chemical binding]; other site 416344014081 dimer interface [polypeptide binding]; other site 416344014082 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 416344014083 PYR/PP interface [polypeptide binding]; other site 416344014084 dimer interface [polypeptide binding]; other site 416344014085 TPP binding site [chemical binding]; other site 416344014086 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 416344014087 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 416344014088 CsbD-like; Region: CsbD; pfam05532 416344014089 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 416344014090 Putative glucoamylase; Region: Glycoamylase; pfam10091 416344014091 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 416344014092 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 416344014093 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 416344014094 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 416344014095 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 416344014096 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416344014097 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416344014098 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416344014099 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416344014100 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344014101 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 416344014102 DNA binding residues [nucleotide binding] 416344014103 dimerization interface [polypeptide binding]; other site 416344014104 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 416344014105 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 416344014106 ligand binding site [chemical binding]; other site 416344014107 flexible hinge region; other site 416344014108 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 416344014109 putative switch regulator; other site 416344014110 non-specific DNA interactions [nucleotide binding]; other site 416344014111 DNA binding site [nucleotide binding] 416344014112 sequence specific DNA binding site [nucleotide binding]; other site 416344014113 putative cAMP binding site [chemical binding]; other site 416344014114 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 416344014115 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 416344014116 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 416344014117 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 416344014118 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 416344014119 DDE superfamily endonuclease; Region: DDE_5; cl17874 416344014120 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 416344014121 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 416344014122 dimerization interface [polypeptide binding]; other site 416344014123 putative DNA binding site [nucleotide binding]; other site 416344014124 putative Zn2+ binding site [ion binding]; other site 416344014125 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 416344014126 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 416344014127 FMN binding site [chemical binding]; other site 416344014128 active site 416344014129 substrate binding site [chemical binding]; other site 416344014130 catalytic residue [active] 416344014131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344014132 Coenzyme A binding pocket [chemical binding]; other site 416344014133 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416344014134 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 416344014135 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344014136 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416344014137 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 416344014138 active site 416344014139 catalytic site [active] 416344014140 putative metal binding site [ion binding]; other site 416344014141 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344014142 DNA binding site [nucleotide binding] 416344014143 domain linker motif; other site 416344014144 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 416344014145 putative dimerization interface [polypeptide binding]; other site 416344014146 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 416344014147 putative ligand binding site [chemical binding]; other site 416344014148 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416344014149 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 416344014150 dimer interface [polypeptide binding]; other site 416344014151 conserved gate region; other site 416344014152 putative PBP binding loops; other site 416344014153 ABC-ATPase subunit interface; other site 416344014154 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 416344014155 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 416344014156 dimer interface [polypeptide binding]; other site 416344014157 conserved gate region; other site 416344014158 putative PBP binding loops; other site 416344014159 ABC-ATPase subunit interface; other site 416344014160 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416344014161 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416344014162 Predicted metalloprotease [General function prediction only]; Region: COG2321 416344014163 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 416344014164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344014165 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416344014166 NAD(P) binding site [chemical binding]; other site 416344014167 active site 416344014168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344014169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344014170 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 416344014171 dimerization interface [polypeptide binding]; other site 416344014172 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344014173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344014174 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 416344014175 dimerization interface [polypeptide binding]; other site 416344014176 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 416344014177 putative substrate translocation pore; other site 416344014178 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 416344014179 short chain dehydrogenase; Provisional; Region: PRK12828 416344014180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344014181 NAD(P) binding site [chemical binding]; other site 416344014182 active site 416344014183 dihydrodipicolinate reductase; Region: dapB_plant; TIGR02130 416344014184 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 416344014185 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 416344014186 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344014187 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416344014188 EamA-like transporter family; Region: EamA; pfam00892 416344014189 EamA-like transporter family; Region: EamA; pfam00892 416344014190 Entericidin EcnA/B family; Region: Entericidin; cl02322 416344014191 aspartate carbamoyltransferase; Provisional; Region: PRK11891 416344014192 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416344014193 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 416344014194 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 416344014195 metal-binding site 416344014196 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 416344014197 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 416344014198 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 416344014199 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 416344014200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 416344014201 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 416344014202 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 416344014203 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344014204 dimer interface [polypeptide binding]; other site 416344014205 putative CheW interface [polypeptide binding]; other site 416344014206 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 416344014207 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416344014208 Walker A motif; other site 416344014209 ATP binding site [chemical binding]; other site 416344014210 Walker B motif; other site 416344014211 arginine finger; other site 416344014212 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 416344014213 DNA-binding interface [nucleotide binding]; DNA binding site 416344014214 ribonuclease E; Reviewed; Region: rne; PRK10811 416344014215 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 416344014216 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014217 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344014218 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 416344014219 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 416344014220 catalytic loop [active] 416344014221 iron binding site [ion binding]; other site 416344014222 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 416344014223 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 416344014224 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344014225 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 416344014226 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344014227 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 416344014228 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344014229 DNA binding site [nucleotide binding] 416344014230 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 416344014231 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 416344014232 type III secretion system protein YscR; Provisional; Region: PRK12797 416344014233 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 416344014234 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416344014235 catalytic residue [active] 416344014236 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416344014237 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 416344014238 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 416344014239 active site 416344014240 dimer interface [polypeptide binding]; other site 416344014241 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 416344014242 Ligand Binding Site [chemical binding]; other site 416344014243 Molecular Tunnel; other site 416344014244 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 416344014245 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 416344014246 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 416344014247 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 416344014248 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 416344014249 Walker A motif; other site 416344014250 ATP binding site [chemical binding]; other site 416344014251 Walker B motif; other site 416344014252 type III secretion system protein; Reviewed; Region: PRK06937 416344014253 Flagellar assembly protein FliH; Region: FliH; pfam02108 416344014254 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 416344014255 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 416344014256 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 416344014257 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 416344014258 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 416344014259 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 416344014260 type III secretion protein, HrpO family; Region: fliQ_rel_III; TIGR01403 416344014261 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 416344014262 FHIPEP family; Region: FHIPEP; pfam00771 416344014263 Autoinducer binding domain; Region: Autoind_bind; pfam03472 416344014264 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344014265 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 416344014266 dimerization interface [polypeptide binding]; other site 416344014267 DNA binding residues [nucleotide binding] 416344014268 Autoinducer binding domain; Region: Autoind_bind; pfam03472 416344014269 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344014270 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 416344014271 DNA binding residues [nucleotide binding] 416344014272 dimerization interface [polypeptide binding]; other site 416344014273 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 416344014274 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416344014275 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 416344014276 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 416344014277 Trehalase; Region: Trehalase; cl17346 416344014278 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 416344014279 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344014280 putative substrate translocation pore; other site 416344014281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 416344014282 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 416344014283 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 416344014284 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 416344014285 Acetokinase family; Region: Acetate_kinase; cl17229 416344014286 propionate/acetate kinase; Provisional; Region: PRK12379 416344014287 phosphate acetyltransferase; Provisional; Region: PRK11890 416344014288 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 416344014289 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 416344014290 core domain interface [polypeptide binding]; other site 416344014291 delta subunit interface [polypeptide binding]; other site 416344014292 epsilon subunit interface [polypeptide binding]; other site 416344014293 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 416344014294 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 416344014295 gamma subunit interface [polypeptide binding]; other site 416344014296 epsilon subunit interface [polypeptide binding]; other site 416344014297 LBP interface [polypeptide binding]; other site 416344014298 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 416344014299 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 416344014300 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344014301 Coenzyme A binding pocket [chemical binding]; other site 416344014302 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 416344014303 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 416344014304 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416344014305 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416344014306 diaminopimelate decarboxylase; Provisional; Region: PRK11165 416344014307 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 416344014308 active site 416344014309 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416344014310 substrate binding site [chemical binding]; other site 416344014311 catalytic residues [active] 416344014312 dimer interface [polypeptide binding]; other site 416344014313 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416344014314 EamA-like transporter family; Region: EamA; pfam00892 416344014315 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 416344014316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344014317 DNA-binding site [nucleotide binding]; DNA binding site 416344014318 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 416344014319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344014320 homodimer interface [polypeptide binding]; other site 416344014321 catalytic residue [active] 416344014322 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 416344014323 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 416344014324 active site 416344014325 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 416344014326 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416344014327 active site 416344014328 nucleotide binding site [chemical binding]; other site 416344014329 HIGH motif; other site 416344014330 KMSKS motif; other site 416344014331 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 416344014332 nudix motif; other site 416344014333 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 416344014334 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 416344014335 active site 416344014336 metal binding site [ion binding]; metal-binding site 416344014337 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 416344014338 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 416344014339 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 416344014340 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344014341 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 416344014342 non-specific DNA binding site [nucleotide binding]; other site 416344014343 salt bridge; other site 416344014344 sequence-specific DNA binding site [nucleotide binding]; other site 416344014345 Cupin domain; Region: Cupin_2; pfam07883 416344014346 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344014347 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344014348 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344014349 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 416344014350 ATP binding site [chemical binding]; other site 416344014351 Mg2+ binding site [ion binding]; other site 416344014352 G-X-G motif; other site 416344014353 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 416344014354 active site 2 [active] 416344014355 active site 1 [active] 416344014356 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 416344014357 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 416344014358 active site 416344014359 phosphorylation site [posttranslational modification] 416344014360 intermolecular recognition site; other site 416344014361 dimerization interface [polypeptide binding]; other site 416344014362 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 416344014363 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 416344014364 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 416344014365 benzoate transport; Region: 2A0115; TIGR00895 416344014366 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 416344014367 putative substrate translocation pore; other site 416344014368 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 416344014369 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 416344014370 active site 416344014371 catalytic residues [active] 416344014372 metal binding site [ion binding]; metal-binding site 416344014373 DmpG-like communication domain; Region: DmpG_comm; pfam07836 416344014374 acetaldehyde dehydrogenase; Validated; Region: PRK08300 416344014375 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 416344014376 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 416344014377 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 416344014378 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 416344014379 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 416344014380 putative active site [active] 416344014381 Fe(II) binding site [ion binding]; other site 416344014382 putative dimer interface [polypeptide binding]; other site 416344014383 putative tetramer interface [polypeptide binding]; other site 416344014384 FAD binding domain; Region: FAD_binding_3; pfam01494 416344014385 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416344014386 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 416344014387 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 416344014388 non-specific DNA interactions [nucleotide binding]; other site 416344014389 DNA binding site [nucleotide binding] 416344014390 sequence specific DNA binding site [nucleotide binding]; other site 416344014391 putative cAMP binding site [chemical binding]; other site 416344014392 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 416344014393 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 416344014394 Flavin binding site [chemical binding]; other site 416344014395 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344014396 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 416344014397 active site 416344014398 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 416344014399 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 416344014400 active site 416344014401 non-prolyl cis peptide bond; other site 416344014402 benzoate transport; Region: 2A0115; TIGR00895 416344014403 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 416344014404 putative substrate translocation pore; other site 416344014405 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 416344014406 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 416344014407 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 416344014408 multidrug efflux protein; Reviewed; Region: PRK09579 416344014409 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 416344014410 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344014411 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344014412 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 416344014413 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 416344014414 putative substrate translocation pore; other site 416344014415 Thermostable hemolysin; Region: T_hemolysin; pfam12261 416344014416 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 416344014417 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416344014418 acyl-activating enzyme (AAE) consensus motif; other site 416344014419 AMP binding site [chemical binding]; other site 416344014420 active site 416344014421 CoA binding site [chemical binding]; other site 416344014422 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 416344014423 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 416344014424 substrate binding pocket [chemical binding]; other site 416344014425 active site 416344014426 iron coordination sites [ion binding]; other site 416344014427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344014428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344014429 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 416344014430 substrate binding pocket [chemical binding]; other site 416344014431 dimerization interface [polypeptide binding]; other site 416344014432 MarR family; Region: MarR_2; cl17246 416344014433 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344014434 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 416344014435 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 416344014436 Flavin Reductases; Region: FlaRed; cl00801 416344014437 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 416344014438 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416344014439 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 416344014440 acyl-activating enzyme (AAE) consensus motif; other site 416344014441 putative AMP binding site [chemical binding]; other site 416344014442 putative active site [active] 416344014443 putative CoA binding site [chemical binding]; other site 416344014444 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 416344014445 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 416344014446 substrate binding site [chemical binding]; other site 416344014447 oxyanion hole (OAH) forming residues; other site 416344014448 trimer interface [polypeptide binding]; other site 416344014449 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 416344014450 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 416344014451 Creatinine amidohydrolase; Region: Creatininase; pfam02633 416344014452 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 416344014453 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 416344014454 substrate binding site [chemical binding]; other site 416344014455 oxyanion hole (OAH) forming residues; other site 416344014456 trimer interface [polypeptide binding]; other site 416344014457 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 416344014458 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014459 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344014460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014461 acyl-CoA synthetase; Validated; Region: PRK08162 416344014462 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 416344014463 acyl-activating enzyme (AAE) consensus motif; other site 416344014464 putative active site [active] 416344014465 AMP binding site [chemical binding]; other site 416344014466 putative CoA binding site [chemical binding]; other site 416344014467 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 416344014468 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 416344014469 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 416344014470 dimerization interface [polypeptide binding]; other site 416344014471 active site 416344014472 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344014473 AsnC family; Region: AsnC_trans_reg; pfam01037 416344014474 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 416344014475 E3 interaction surface; other site 416344014476 lipoyl attachment site [posttranslational modification]; other site 416344014477 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 416344014478 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344014479 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344014480 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416344014481 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 416344014482 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 416344014483 E3 interaction surface; other site 416344014484 lipoyl attachment site [posttranslational modification]; other site 416344014485 e3 binding domain; Region: E3_binding; pfam02817 416344014486 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 416344014487 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 416344014488 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 416344014489 dimer interface [polypeptide binding]; other site 416344014490 TPP-binding site [chemical binding]; other site 416344014491 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 416344014492 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 416344014493 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416344014494 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014495 benzoate transport; Region: 2A0115; TIGR00895 416344014496 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 416344014497 putative substrate translocation pore; other site 416344014498 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 416344014499 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344014500 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 416344014501 trimer interface [polypeptide binding]; other site 416344014502 eyelet of channel; other site 416344014503 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 416344014504 Protein of unknown function, DUF488; Region: DUF488; pfam04343 416344014505 hypothetical protein; Provisional; Region: PRK10621 416344014506 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 416344014507 NnrU protein; Region: NnrU; pfam07298 416344014508 TfoX N-terminal domain; Region: TfoX_N; pfam04993 416344014509 putative dehydrogenase; Provisional; Region: PRK10098 416344014510 hypothetical protein; Provisional; Region: PRK07907 416344014511 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 416344014512 metal binding site [ion binding]; metal-binding site 416344014513 putative dimer interface [polypeptide binding]; other site 416344014514 arginine:agmatin antiporter; Provisional; Region: PRK10644 416344014515 arginine decarboxylase; Provisional; Region: PRK15029 416344014516 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 416344014517 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 416344014518 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344014519 catalytic residue [active] 416344014520 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 416344014521 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 416344014522 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 416344014523 conserved cys residue [active] 416344014524 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014526 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 416344014527 active site residue [active] 416344014528 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 416344014529 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 416344014530 Cytochrome P450; Region: p450; cl12078 416344014531 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 416344014532 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 416344014533 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 416344014534 tetramer interface [polypeptide binding]; other site 416344014535 active site 416344014536 Mg2+/Mn2+ binding site [ion binding]; other site 416344014537 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416344014538 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416344014539 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 416344014540 putative active site [active] 416344014541 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 416344014542 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 416344014543 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 416344014544 active site 416344014545 phosphorylation site [posttranslational modification] 416344014546 intermolecular recognition site; other site 416344014547 dimerization interface [polypeptide binding]; other site 416344014548 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 416344014549 DNA binding site [nucleotide binding] 416344014550 sensor protein QseC; Provisional; Region: PRK10337 416344014551 HAMP domain; Region: HAMP; pfam00672 416344014552 dimerization interface [polypeptide binding]; other site 416344014553 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 416344014554 dimer interface [polypeptide binding]; other site 416344014555 phosphorylation site [posttranslational modification] 416344014556 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 416344014557 ATP binding site [chemical binding]; other site 416344014558 Mg2+ binding site [ion binding]; other site 416344014559 G-X-G motif; other site 416344014560 Protein of unknown function (DUF805); Region: DUF805; cl01224 416344014561 Transposase domain (DUF772); Region: DUF772; pfam05598 416344014562 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416344014563 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 416344014564 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344014565 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344014566 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 416344014567 putative dimerization interface [polypeptide binding]; other site 416344014568 putative substrate binding pocket [chemical binding]; other site 416344014569 dihydroxyacetone kinase; Provisional; Region: PRK14479 416344014570 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 416344014571 DAK2 domain; Region: Dak2; pfam02734 416344014572 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 416344014573 metabolite-proton symporter; Region: 2A0106; TIGR00883 416344014574 putative substrate translocation pore; other site 416344014575 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; cl17904 416344014576 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 416344014577 Transposase; Region: DEDD_Tnp_IS110; pfam01548 416344014578 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 416344014579 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 416344014580 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416344014581 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 416344014582 Fusaric acid resistance protein family; Region: FUSC; pfam04632 416344014583 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 416344014584 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 416344014585 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344014586 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 416344014587 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 416344014588 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416344014589 EamA-like transporter family; Region: EamA; pfam00892 416344014590 ProQ/FINO family; Region: ProQ; pfam04352 416344014591 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 416344014592 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 416344014593 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344014594 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344014595 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344014596 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 416344014597 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 416344014598 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 416344014599 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 416344014600 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 416344014601 P-loop; other site 416344014602 Magnesium ion binding site [ion binding]; other site 416344014603 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 416344014604 ParB-like nuclease domain; Region: ParB; smart00470 416344014605 Initiator Replication protein; Region: Rep_3; pfam01051 416344014606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344014607 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344014608 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 416344014609 dimerization interface [polypeptide binding]; other site 416344014610 substrate binding pocket [chemical binding]; other site 416344014611 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 416344014612 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 416344014613 GDP-binding site [chemical binding]; other site 416344014614 ACT binding site; other site 416344014615 IMP binding site; other site 416344014616 transcriptional regulator; Provisional; Region: PRK10632 416344014617 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344014618 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 416344014619 putative effector binding pocket; other site 416344014620 dimerization interface [polypeptide binding]; other site 416344014621 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 416344014622 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344014623 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 416344014624 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 416344014625 RES domain; Region: RES; pfam08808 416344014626 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 416344014627 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 416344014628 active site 416344014629 Int/Topo IB signature motif; other site 416344014630 catalytic residues [active] 416344014631 DNA binding site [nucleotide binding] 416344014632 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 416344014633 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 416344014634 active site 416344014635 metal binding site [ion binding]; metal-binding site 416344014636 DNA binding site [nucleotide binding] 416344014637 P-loop containing region of AAA domain; Region: AAA_29; cl17516 416344014638 AAA domain; Region: AAA_23; pfam13476 416344014639 AAA domain; Region: AAA_27; pfam13514 416344014640 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 416344014641 HD domain; Region: HD_4; pfam13328 416344014642 Protein of unknown function (DUF429); Region: DUF429; pfam04250 416344014643 SnoaL-like domain; Region: SnoaL_3; pfam13474 416344014644 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 416344014645 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344014646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014647 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 416344014648 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 416344014649 active site 416344014650 acyl-activating enzyme (AAE) consensus motif; other site 416344014651 putative CoA binding site [chemical binding]; other site 416344014652 AMP binding site [chemical binding]; other site 416344014653 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 416344014654 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 416344014655 NAD binding site [chemical binding]; other site 416344014656 homodimer interface [polypeptide binding]; other site 416344014657 homotetramer interface [polypeptide binding]; other site 416344014658 active site 416344014659 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 416344014660 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 416344014661 dimer interface [polypeptide binding]; other site 416344014662 active site 416344014663 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 416344014664 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344014665 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 416344014666 allantoate amidohydrolase; Reviewed; Region: PRK12893 416344014667 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 416344014668 active site 416344014669 metal binding site [ion binding]; metal-binding site 416344014670 dimer interface [polypeptide binding]; other site 416344014671 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 416344014672 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 416344014673 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 416344014674 homodimer interface [polypeptide binding]; other site 416344014675 active site 416344014676 FMN binding site [chemical binding]; other site 416344014677 substrate binding site [chemical binding]; other site 416344014678 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 416344014679 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 416344014680 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 416344014681 Na binding site [ion binding]; other site 416344014682 putative substrate binding site [chemical binding]; other site 416344014683 phenylhydantoinase; Validated; Region: PRK08323 416344014684 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 416344014685 tetramer interface [polypeptide binding]; other site 416344014686 active site 416344014687 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 416344014688 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 416344014689 [2Fe-2S] cluster binding site [ion binding]; other site 416344014690 methionine sulfoxide reductase A; Provisional; Region: PRK13014 416344014691 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 416344014692 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 416344014693 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 416344014694 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416344014695 catalytic residues [active] 416344014696 methionine sulfoxide reductase B; Provisional; Region: PRK00222 416344014697 SelR domain; Region: SelR; pfam01641 416344014698 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 416344014699 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 416344014700 substrate binding pocket [chemical binding]; other site 416344014701 membrane-bound complex binding site; other site 416344014702 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 416344014703 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 416344014704 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 416344014705 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 416344014706 urea carboxylase; Region: urea_carbox; TIGR02712 416344014707 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416344014708 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416344014709 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 416344014710 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 416344014711 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 416344014712 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 416344014713 carboxyltransferase (CT) interaction site; other site 416344014714 biotinylation site [posttranslational modification]; other site 416344014715 allophanate hydrolase; Provisional; Region: PRK08186 416344014716 Amidase; Region: Amidase; cl11426 416344014717 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 416344014718 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 416344014719 dimer interface [polypeptide binding]; other site 416344014720 conserved gate region; other site 416344014721 putative PBP binding loops; other site 416344014722 ABC-ATPase subunit interface; other site 416344014723 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 416344014724 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 416344014725 Walker A/P-loop; other site 416344014726 ATP binding site [chemical binding]; other site 416344014727 Q-loop/lid; other site 416344014728 ABC transporter signature motif; other site 416344014729 Walker B; other site 416344014730 D-loop; other site 416344014731 H-loop/switch region; other site 416344014732 hypothetical protein; Validated; Region: PRK07586 416344014733 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416344014734 PYR/PP interface [polypeptide binding]; other site 416344014735 dimer interface [polypeptide binding]; other site 416344014736 TPP binding site [chemical binding]; other site 416344014737 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 416344014738 TPP-binding site [chemical binding]; other site 416344014739 dimer interface [polypeptide binding]; other site 416344014740 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 416344014741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344014742 NAD(P) binding site [chemical binding]; other site 416344014743 active site 416344014744 BNR repeat-like domain; Region: BNR_2; pfam13088 416344014745 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 416344014746 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344014747 putative active site [active] 416344014748 putative metal binding site [ion binding]; other site 416344014749 Amino acid synthesis; Region: AA_synth; pfam06684 416344014750 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344014751 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344014752 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 416344014753 catalytic site [active] 416344014754 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 416344014755 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416344014756 NIPSNAP; Region: NIPSNAP; pfam07978 416344014757 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344014758 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 416344014759 tetramerization interface [polypeptide binding]; other site 416344014760 NAD(P) binding site [chemical binding]; other site 416344014761 catalytic residues [active] 416344014762 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 416344014763 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344014764 Bacterial transcriptional regulator; Region: IclR; pfam01614 416344014765 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344014766 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 416344014767 trimer interface [polypeptide binding]; other site 416344014768 eyelet of channel; other site 416344014769 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344014770 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 416344014771 trimer interface [polypeptide binding]; other site 416344014772 eyelet of channel; other site 416344014773 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 416344014774 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 416344014775 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344014776 NAD(P) binding site [chemical binding]; other site 416344014777 catalytic residues [active] 416344014778 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 416344014779 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344014780 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 416344014781 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 416344014782 putative substrate translocation pore; other site 416344014783 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 416344014784 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 416344014785 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 416344014786 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 416344014787 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344014788 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416344014789 DNA binding site [nucleotide binding] 416344014790 domain linker motif; other site 416344014791 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 416344014792 putative dimerization interface [polypeptide binding]; other site 416344014793 putative ligand binding site [chemical binding]; other site 416344014794 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 416344014795 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 416344014796 putative substrate translocation pore; other site 416344014797 citrate-proton symporter; Provisional; Region: PRK15075 416344014798 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 416344014799 putative substrate translocation pore; other site 416344014800 tricarballylate utilization protein B; Provisional; Region: PRK15033 416344014801 tricarballylate dehydrogenase; Validated; Region: PRK08274 416344014802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344014803 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 416344014804 putative dimerization interface [polypeptide binding]; other site 416344014805 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 416344014806 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 416344014807 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 416344014808 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 416344014809 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 416344014810 Bacterial sugar transferase; Region: Bac_transf; pfam02397 416344014811 Low molecular weight phosphatase family; Region: LMWPc; cl00105 416344014812 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 416344014813 active site 416344014814 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 416344014815 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 416344014816 SLBB domain; Region: SLBB; pfam10531 416344014817 Chain length determinant protein; Region: Wzz; pfam02706 416344014818 tyrosine kinase; Provisional; Region: PRK11519 416344014819 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 416344014820 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 416344014821 Nucleotide binding site [chemical binding]; other site 416344014822 DTAP/Switch II; other site 416344014823 Switch I; other site 416344014824 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 416344014825 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 416344014826 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416344014827 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 416344014828 active site 416344014829 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344014830 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 416344014831 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 416344014832 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 416344014833 Probable Catalytic site; other site 416344014834 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 416344014835 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 416344014836 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 416344014837 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 416344014838 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 416344014839 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 416344014840 H-NS histone family; Region: Histone_HNS; pfam00816 416344014841 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 416344014842 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 416344014843 putative DNA binding site [nucleotide binding]; other site 416344014844 dimerization interface [polypeptide binding]; other site 416344014845 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416344014846 putative Zn2+ binding site [ion binding]; other site 416344014847 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 416344014848 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 416344014849 putative chaperone protein EcpD; Provisional; Region: PRK09926 416344014850 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 416344014851 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 416344014852 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 416344014853 PapC N-terminal domain; Region: PapC_N; pfam13954 416344014854 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 416344014855 PapC C-terminal domain; Region: PapC_C; pfam13953 416344014856 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 416344014857 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 416344014858 Paraquat-inducible protein A; Region: PqiA; pfam04403 416344014859 Paraquat-inducible protein A; Region: PqiA; pfam04403 416344014860 mce related protein; Region: MCE; pfam02470 416344014861 mce related protein; Region: MCE; pfam02470 416344014862 Protein of unknown function (DUF330); Region: DUF330; pfam03886 416344014863 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 416344014864 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 416344014865 Cupin; Region: Cupin_6; pfam12852 416344014866 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344014867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014868 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 416344014869 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344014870 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 416344014871 active site 416344014872 phosphorylation site [posttranslational modification] 416344014873 intermolecular recognition site; other site 416344014874 dimerization interface [polypeptide binding]; other site 416344014875 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 416344014876 DNA binding site [nucleotide binding] 416344014877 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344014878 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 416344014879 dimer interface [polypeptide binding]; other site 416344014880 phosphorylation site [posttranslational modification] 416344014881 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 416344014882 ATP binding site [chemical binding]; other site 416344014883 Mg2+ binding site [ion binding]; other site 416344014884 G-X-G motif; other site 416344014885 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 416344014886 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344014887 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014888 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 416344014889 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 416344014890 acyl-activating enzyme (AAE) consensus motif; other site 416344014891 putative AMP binding site [chemical binding]; other site 416344014892 putative active site [active] 416344014893 putative CoA binding site [chemical binding]; other site 416344014894 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 416344014895 Helix-turn-helix domain; Region: HTH_18; pfam12833 416344014896 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014897 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 416344014898 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 416344014899 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 416344014900 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 416344014901 homodimer interface [polypeptide binding]; other site 416344014902 ligand binding site [chemical binding]; other site 416344014903 NAD(P) binding site [chemical binding]; other site 416344014904 trimer interface B [polypeptide binding]; other site 416344014905 trimer interface A [polypeptide binding]; other site 416344014906 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 416344014907 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 416344014908 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 416344014909 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344014910 active site 416344014911 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 416344014912 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 416344014913 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416344014914 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 416344014915 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 416344014916 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 416344014917 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416344014918 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 416344014919 active site 416344014920 catalytic residues [active] 416344014921 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 416344014922 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344014923 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 416344014924 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 416344014925 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344014926 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344014927 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 416344014928 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416344014929 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014930 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344014931 short chain dehydrogenase; Provisional; Region: PRK06180 416344014932 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 416344014933 NADP binding site [chemical binding]; other site 416344014934 active site 416344014935 steroid binding site; other site 416344014936 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 416344014937 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 416344014938 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 416344014939 Ligand Binding Site [chemical binding]; other site 416344014940 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 416344014941 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 416344014942 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 416344014943 [4Fe-4S] binding site [ion binding]; other site 416344014944 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 416344014945 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 416344014946 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 416344014947 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 416344014948 molybdopterin cofactor binding site; other site 416344014949 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 416344014950 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 416344014951 4Fe-4S binding domain; Region: Fer4; cl02805 416344014952 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 416344014953 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 416344014954 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 416344014955 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 416344014956 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 416344014957 putative substrate translocation pore; other site 416344014958 TfoX N-terminal domain; Region: TfoX_N; pfam04993 416344014959 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344014960 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 416344014961 DNA binding site [nucleotide binding] 416344014962 Predicted ATPase [General function prediction only]; Region: COG3903 416344014963 AAA domain; Region: AAA_14; pfam13173 416344014964 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344014965 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 416344014966 active site 416344014967 phosphorylation site [posttranslational modification] 416344014968 intermolecular recognition site; other site 416344014969 dimerization interface [polypeptide binding]; other site 416344014970 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 416344014971 DNA binding site [nucleotide binding] 416344014972 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 416344014973 Catalytic domain of Protein Kinases; Region: PKc; cd00180 416344014974 active site 416344014975 ATP binding site [chemical binding]; other site 416344014976 substrate binding site [chemical binding]; other site 416344014977 activation loop (A-loop); other site 416344014978 AAA ATPase domain; Region: AAA_16; pfam13191 416344014979 Predicted ATPase [General function prediction only]; Region: COG3899 416344014980 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 416344014981 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 416344014982 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 416344014983 Histidine kinase; Region: HisKA_2; pfam07568 416344014984 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 416344014985 ATP binding site [chemical binding]; other site 416344014986 Mg2+ binding site [ion binding]; other site 416344014987 G-X-G motif; other site 416344014988 Response regulator receiver domain; Region: Response_reg; pfam00072 416344014989 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 416344014990 active site 416344014991 phosphorylation site [posttranslational modification] 416344014992 intermolecular recognition site; other site 416344014993 dimerization interface [polypeptide binding]; other site 416344014994 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 416344014995 PAS domain; Region: PAS_9; pfam13426 416344014996 putative active site [active] 416344014997 heme pocket [chemical binding]; other site 416344014998 PAS fold; Region: PAS_3; pfam08447 416344014999 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 416344015000 putative active site [active] 416344015001 heme pocket [chemical binding]; other site 416344015002 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 416344015003 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 416344015004 putative active site [active] 416344015005 heme pocket [chemical binding]; other site 416344015006 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 416344015007 dimer interface [polypeptide binding]; other site 416344015008 phosphorylation site [posttranslational modification] 416344015009 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 416344015010 ATP binding site [chemical binding]; other site 416344015011 Mg2+ binding site [ion binding]; other site 416344015012 G-X-G motif; other site 416344015013 Response regulator receiver domain; Region: Response_reg; pfam00072 416344015014 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 416344015015 active site 416344015016 phosphorylation site [posttranslational modification] 416344015017 intermolecular recognition site; other site 416344015018 dimerization interface [polypeptide binding]; other site 416344015019 Response regulator receiver domain; Region: Response_reg; pfam00072 416344015020 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 416344015021 active site 416344015022 phosphorylation site [posttranslational modification] 416344015023 intermolecular recognition site; other site 416344015024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344015025 dimerization interface [polypeptide binding]; other site 416344015026 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 416344015027 ATP binding site [chemical binding]; other site 416344015028 Mg2+ binding site [ion binding]; other site 416344015029 G-X-G motif; other site 416344015030 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 416344015031 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344015032 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344015033 dimer interface [polypeptide binding]; other site 416344015034 putative CheW interface [polypeptide binding]; other site 416344015035 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 416344015036 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 416344015037 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 416344015038 substrate binding site [chemical binding]; other site 416344015039 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 416344015040 substrate binding site [chemical binding]; other site 416344015041 ligand binding site [chemical binding]; other site 416344015042 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 416344015043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344015044 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 416344015045 dimerization interface [polypeptide binding]; other site 416344015046 FOG: CBS domain [General function prediction only]; Region: COG0517 416344015047 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 416344015048 FOG: CBS domain [General function prediction only]; Region: COG0517 416344015049 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 416344015050 FOG: CBS domain [General function prediction only]; Region: COG0517 416344015051 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 416344015052 PAS domain; Region: PAS_9; pfam13426 416344015053 putative active site [active] 416344015054 heme pocket [chemical binding]; other site 416344015055 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344015056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344015057 metal binding site [ion binding]; metal-binding site 416344015058 active site 416344015059 I-site; other site 416344015060 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 416344015061 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 416344015062 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 416344015063 active site 416344015064 HIGH motif; other site 416344015065 dimer interface [polypeptide binding]; other site 416344015066 KMSKS motif; other site 416344015067 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 416344015068 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344015069 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 416344015070 homotrimer interaction site [polypeptide binding]; other site 416344015071 putative active site [active] 416344015072 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 416344015073 acetylornithine deacetylase; Provisional; Region: PRK07522 416344015074 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 416344015075 metal binding site [ion binding]; metal-binding site 416344015076 putative dimer interface [polypeptide binding]; other site 416344015077 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344015078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344015079 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 416344015080 putative substrate binding pocket [chemical binding]; other site 416344015081 dimerization interface [polypeptide binding]; other site 416344015082 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 416344015083 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 416344015084 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 416344015085 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 416344015086 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416344015087 trimer interface [polypeptide binding]; other site 416344015088 Haemagglutinin; Region: HIM; pfam05662 416344015089 H-NS histone family; Region: Histone_HNS; pfam00816 416344015090 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 416344015091 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 416344015092 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 416344015093 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 416344015094 NAD binding site [chemical binding]; other site 416344015095 catalytic Zn binding site [ion binding]; other site 416344015096 structural Zn binding site [ion binding]; other site 416344015097 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 416344015098 dimerization interface [polypeptide binding]; other site 416344015099 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 416344015100 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 416344015101 putative active site [active] 416344015102 heme pocket [chemical binding]; other site 416344015103 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 416344015104 dimer interface [polypeptide binding]; other site 416344015105 phosphorylation site [posttranslational modification] 416344015106 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 416344015107 ATP binding site [chemical binding]; other site 416344015108 Mg2+ binding site [ion binding]; other site 416344015109 G-X-G motif; other site 416344015110 Response regulator receiver domain; Region: Response_reg; pfam00072 416344015111 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 416344015112 active site 416344015113 phosphorylation site [posttranslational modification] 416344015114 intermolecular recognition site; other site 416344015115 dimerization interface [polypeptide binding]; other site 416344015116 BON domain; Region: BON; pfam04972 416344015117 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416344015118 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 416344015119 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344015120 Walker A/P-loop; other site 416344015121 ATP binding site [chemical binding]; other site 416344015122 Q-loop/lid; other site 416344015123 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344015124 ABC transporter signature motif; other site 416344015125 Walker B; other site 416344015126 D-loop; other site 416344015127 H-loop/switch region; other site 416344015128 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 416344015129 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 416344015130 active site 416344015131 phosphorylation site [posttranslational modification] 416344015132 intermolecular recognition site; other site 416344015133 short chain dehydrogenase; Provisional; Region: PRK07326 416344015134 classical (c) SDRs; Region: SDR_c; cd05233 416344015135 NAD(P) binding site [chemical binding]; other site 416344015136 active site 416344015137 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 416344015138 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 416344015139 active site 416344015140 motif I; other site 416344015141 motif II; other site 416344015142 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 416344015143 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 416344015144 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 416344015145 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 416344015146 active site 416344015147 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416344015148 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 416344015149 putative active site [active] 416344015150 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344015151 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 416344015152 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 416344015153 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 416344015154 Walker A motif; other site 416344015155 ATP binding site [chemical binding]; other site 416344015156 Walker B motif; other site 416344015157 arginine finger; other site 416344015158 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 416344015159 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 416344015160 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 416344015161 active site 416344015162 phosphorylation site [posttranslational modification] 416344015163 intermolecular recognition site; other site 416344015164 dimerization interface [polypeptide binding]; other site 416344015165 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 416344015166 Walker A motif; other site 416344015167 ATP binding site [chemical binding]; other site 416344015168 Walker B motif; other site 416344015169 arginine finger; other site 416344015170 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344015171 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 416344015172 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 416344015173 active site 416344015174 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 416344015175 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 416344015176 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 416344015177 putative active site [active] 416344015178 heme pocket [chemical binding]; other site 416344015179 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 416344015180 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 416344015181 putative active site [active] 416344015182 heme pocket [chemical binding]; other site 416344015183 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 416344015184 dimer interface [polypeptide binding]; other site 416344015185 phosphorylation site [posttranslational modification] 416344015186 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 416344015187 ATP binding site [chemical binding]; other site 416344015188 Mg2+ binding site [ion binding]; other site 416344015189 G-X-G motif; other site 416344015190 Response regulator receiver domain; Region: Response_reg; pfam00072 416344015191 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 416344015192 active site 416344015193 phosphorylation site [posttranslational modification] 416344015194 intermolecular recognition site; other site 416344015195 dimerization interface [polypeptide binding]; other site 416344015196 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416344015197 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 416344015198 NAD binding site [chemical binding]; other site 416344015199 putative substrate binding site 2 [chemical binding]; other site 416344015200 putative substrate binding site 1 [chemical binding]; other site 416344015201 active site 416344015202 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 416344015203 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 416344015204 putative ADP-binding pocket [chemical binding]; other site 416344015205 BON domain; Region: BON; pfam04972 416344015206 short chain dehydrogenase; Provisional; Region: PRK07109 416344015207 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 416344015208 putative NAD(P) binding site [chemical binding]; other site 416344015209 active site 416344015210 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 416344015211 short chain dehydrogenase; Provisional; Region: PRK06701 416344015212 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 416344015213 NAD binding site [chemical binding]; other site 416344015214 metal binding site [ion binding]; metal-binding site 416344015215 active site 416344015216 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 416344015217 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 416344015218 dinuclear metal binding motif [ion binding]; other site 416344015219 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 416344015220 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416344015221 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 416344015222 Fe-S cluster binding site [ion binding]; other site 416344015223 active site 416344015224 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 416344015225 Response regulator receiver domain; Region: Response_reg; pfam00072 416344015226 active site 416344015227 phosphorylation site [posttranslational modification] 416344015228 intermolecular recognition site; other site 416344015229 dimerization interface [polypeptide binding]; other site 416344015230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344015231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344015232 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 416344015233 putative dimerization interface [polypeptide binding]; other site 416344015234 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 416344015235 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 416344015236 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 416344015237 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416344015238 citrate-proton symporter; Provisional; Region: PRK15075 416344015239 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 416344015240 putative substrate translocation pore; other site 416344015241 PRC-barrel domain; Region: PRC; pfam05239 416344015242 FOG: CBS domain [General function prediction only]; Region: COG0517 416344015243 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 416344015244 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 416344015245 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 416344015246 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 416344015247 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 416344015248 hydroperoxidase II; Provisional; Region: katE; PRK11249 416344015249 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 416344015250 tetramer interface [polypeptide binding]; other site 416344015251 heme binding pocket [chemical binding]; other site 416344015252 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 416344015253 domain interactions; other site 416344015254 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 416344015255 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 416344015256 putative homodimer interface [polypeptide binding]; other site 416344015257 putative DNA binding site [nucleotide binding]; other site 416344015258 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 416344015259 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 416344015260 active site 416344015261 DNA binding site [nucleotide binding] 416344015262 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 416344015263 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 416344015264 DNA binding site [nucleotide binding] 416344015265 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 416344015266 nucleotide binding site [chemical binding]; other site 416344015267 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 416344015268 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 416344015269 intracellular protease, PfpI family; Region: PfpI; TIGR01382 416344015270 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 416344015271 proposed catalytic triad [active] 416344015272 conserved cys residue [active] 416344015273 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 416344015274 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 416344015275 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 416344015276 PAS domain; Region: PAS_9; pfam13426 416344015277 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344015278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344015279 metal binding site [ion binding]; metal-binding site 416344015280 active site 416344015281 I-site; other site 416344015282 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 416344015283 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 416344015284 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 416344015285 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 416344015286 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 416344015287 substrate binding pocket [chemical binding]; other site 416344015288 catalytic triad [active] 416344015289 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 416344015290 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344015291 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344015292 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 416344015293 dimer interface [polypeptide binding]; other site 416344015294 phosphorylation site [posttranslational modification] 416344015295 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 416344015296 ATP binding site [chemical binding]; other site 416344015297 Mg2+ binding site [ion binding]; other site 416344015298 G-X-G motif; other site 416344015299 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 416344015300 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 416344015301 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 416344015302 active site 416344015303 catalytic site [active] 416344015304 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 416344015305 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 416344015306 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 416344015307 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 416344015308 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 416344015309 active site 416344015310 catalytic site [active] 416344015311 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 416344015312 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 416344015313 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 416344015314 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 416344015315 active site 416344015316 catalytic site [active] 416344015317 glycogen branching enzyme; Provisional; Region: PRK05402 416344015318 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 416344015319 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 416344015320 active site 416344015321 catalytic site [active] 416344015322 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 416344015323 trehalose synthase; Region: treS_nterm; TIGR02456 416344015324 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 416344015325 active site 416344015326 catalytic site [active] 416344015327 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 416344015328 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 416344015329 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 416344015330 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 416344015331 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 416344015332 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 416344015333 active site 416344015334 homodimer interface [polypeptide binding]; other site 416344015335 catalytic site [active] 416344015336 acceptor binding site [chemical binding]; other site 416344015337 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 416344015338 putative catalytic site [active] 416344015339 putative metal binding site [ion binding]; other site 416344015340 putative phosphate binding site [ion binding]; other site 416344015341 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 416344015342 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 416344015343 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 416344015344 putative active site [active] 416344015345 putative active site [active] 416344015346 catalytic site [active] 416344015347 catalytic site [active] 416344015348 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 416344015349 putative active site [active] 416344015350 catalytic site [active] 416344015351 Uncharacterized conserved protein [Function unknown]; Region: COG0398 416344015352 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 416344015353 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 416344015354 MgtC family; Region: MgtC; pfam02308 416344015355 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 416344015356 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 416344015357 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 416344015358 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 416344015359 motif II; other site 416344015360 putative arabinose transporter; Provisional; Region: PRK03545 416344015361 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 416344015362 putative substrate translocation pore; other site 416344015363 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 416344015364 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 416344015365 dimer interface [polypeptide binding]; other site 416344015366 active site 416344015367 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 416344015368 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 416344015369 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 416344015370 putative alpha subunit interface [polypeptide binding]; other site 416344015371 putative active site [active] 416344015372 putative substrate binding site [chemical binding]; other site 416344015373 Fe binding site [ion binding]; other site 416344015374 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 416344015375 inter-subunit interface; other site 416344015376 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 416344015377 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 416344015378 catalytic loop [active] 416344015379 iron binding site [ion binding]; other site 416344015380 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 416344015381 FAD binding pocket [chemical binding]; other site 416344015382 FAD binding motif [chemical binding]; other site 416344015383 phosphate binding motif [ion binding]; other site 416344015384 beta-alpha-beta structure motif; other site 416344015385 NAD binding pocket [chemical binding]; other site 416344015386 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 416344015387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344015388 NAD(P) binding site [chemical binding]; other site 416344015389 active site 416344015390 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 416344015391 homotrimer interaction site [polypeptide binding]; other site 416344015392 putative active site [active] 416344015393 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344015394 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 416344015395 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 416344015396 D-pathway; other site 416344015397 Putative ubiquinol binding site [chemical binding]; other site 416344015398 Low-spin heme (heme b) binding site [chemical binding]; other site 416344015399 Putative water exit pathway; other site 416344015400 Binuclear center (heme o3/CuB) [ion binding]; other site 416344015401 K-pathway; other site 416344015402 Putative proton exit pathway; other site 416344015403 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344015404 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 416344015405 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 416344015406 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 416344015407 Cytochrome c; Region: Cytochrom_C; pfam00034 416344015408 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344015409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344015410 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 416344015411 dimerization interface [polypeptide binding]; other site 416344015412 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 416344015413 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 416344015414 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 416344015415 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 416344015416 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344015417 catalytic residue [active] 416344015418 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 416344015419 dinuclear metal binding motif [ion binding]; other site 416344015420 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416344015421 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416344015422 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 416344015423 active site 416344015424 regulatory protein interface [polypeptide binding]; other site 416344015425 regulatory phosphorylation site [posttranslational modification]; other site 416344015426 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 416344015427 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 416344015428 PhnA protein; Region: PhnA; pfam03831 416344015429 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 416344015430 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 416344015431 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 416344015432 HipA N-terminal domain; Region: Couple_hipA; pfam13657 416344015433 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 416344015434 HipA-like N-terminal domain; Region: HipA_N; pfam07805 416344015435 HipA-like C-terminal domain; Region: HipA_C; pfam07804 416344015436 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 416344015437 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344015438 non-specific DNA binding site [nucleotide binding]; other site 416344015439 salt bridge; other site 416344015440 sequence-specific DNA binding site [nucleotide binding]; other site 416344015441 MgtC family; Region: MgtC; pfam02308 416344015442 FOG: CBS domain [General function prediction only]; Region: COG0517 416344015443 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 416344015444 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 416344015445 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 416344015446 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344015447 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 416344015448 dimer interface [polypeptide binding]; other site 416344015449 phosphorylation site [posttranslational modification] 416344015450 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 416344015451 ATP binding site [chemical binding]; other site 416344015452 Mg2+ binding site [ion binding]; other site 416344015453 G-X-G motif; other site 416344015454 Response regulator receiver domain; Region: Response_reg; pfam00072 416344015455 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 416344015456 active site 416344015457 phosphorylation site [posttranslational modification] 416344015458 intermolecular recognition site; other site 416344015459 dimerization interface [polypeptide binding]; other site 416344015460 oxidoreductase; Provisional; Region: PRK06128 416344015461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416344015462 NAD(P) binding site [chemical binding]; other site 416344015463 active site 416344015464 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 416344015465 Methyltransferase domain; Region: Methyltransf_23; pfam13489 416344015466 Methyltransferase domain; Region: Methyltransf_11; pfam08241 416344015467 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 416344015468 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 416344015469 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 416344015470 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 416344015471 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 416344015472 substrate binding pocket [chemical binding]; other site 416344015473 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416344015474 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 416344015475 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416344015476 DNA binding residues [nucleotide binding] 416344015477 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 416344015478 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 416344015479 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 416344015480 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344015481 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 416344015482 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344015483 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 416344015484 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 416344015485 GTP cyclohydrolase I; Provisional; Region: PLN03044 416344015486 active site 416344015487 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 416344015488 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 416344015489 S-adenosylmethionine binding site [chemical binding]; other site 416344015490 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 416344015491 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 416344015492 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344015493 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 416344015494 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 416344015495 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 416344015496 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 416344015497 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 416344015498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 416344015499 Anti-sigma-K factor rskA; Region: RskA; pfam10099 416344015500 RNA polymerase sigma factor; Provisional; Region: PRK12514 416344015501 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344015502 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 416344015503 DNA binding residues [nucleotide binding] 416344015504 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 416344015505 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 416344015506 active site clefts [active] 416344015507 zinc binding site [ion binding]; other site 416344015508 dimer interface [polypeptide binding]; other site 416344015509 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344015510 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 416344015511 conserved cys residue [active] 416344015512 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344015513 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344015514 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 416344015515 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 416344015516 active site 416344015517 phosphorylation site [posttranslational modification] 416344015518 intermolecular recognition site; other site 416344015519 dimerization interface [polypeptide binding]; other site 416344015520 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 416344015521 DNA binding residues [nucleotide binding] 416344015522 dimerization interface [polypeptide binding]; other site 416344015523 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 416344015524 ATP binding site [chemical binding]; other site 416344015525 Mg2+ binding site [ion binding]; other site 416344015526 G-X-G motif; other site 416344015527 Response regulator receiver domain; Region: Response_reg; pfam00072 416344015528 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 416344015529 active site 416344015530 phosphorylation site [posttranslational modification] 416344015531 intermolecular recognition site; other site 416344015532 dimerization interface [polypeptide binding]; other site 416344015533 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 416344015534 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 416344015535 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 416344015536 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 416344015537 putative substrate translocation pore; other site 416344015538 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344015539 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344015540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344015541 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 416344015542 dimerization interface [polypeptide binding]; other site 416344015543 substrate binding pocket [chemical binding]; other site 416344015544 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_cladeC; cd03378 416344015545 active site clefts [active] 416344015546 zinc binding site [ion binding]; other site 416344015547 dimer interface [polypeptide binding]; other site 416344015548 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344015549 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 416344015550 active site 416344015551 phosphorylation site [posttranslational modification] 416344015552 intermolecular recognition site; other site 416344015553 dimerization interface [polypeptide binding]; other site 416344015554 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 416344015555 DNA binding residues [nucleotide binding] 416344015556 dimerization interface [polypeptide binding]; other site 416344015557 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 416344015558 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 416344015559 dimer interface [polypeptide binding]; other site 416344015560 phosphorylation site [posttranslational modification] 416344015561 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 416344015562 ATP binding site [chemical binding]; other site 416344015563 Mg2+ binding site [ion binding]; other site 416344015564 G-X-G motif; other site 416344015565 Response regulator receiver domain; Region: Response_reg; pfam00072 416344015566 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 416344015567 active site 416344015568 phosphorylation site [posttranslational modification] 416344015569 intermolecular recognition site; other site 416344015570 dimerization interface [polypeptide binding]; other site 416344015571 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 416344015572 Haemagglutinin; Region: HIM; pfam05662 416344015573 YadA-like C-terminal region; Region: YadA; pfam03895 416344015574 H-NS histone family; Region: Histone_HNS; pfam00816 416344015575 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 416344015576 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416344015577 trimer interface [polypeptide binding]; other site 416344015578 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416344015579 trimer interface [polypeptide binding]; other site 416344015580 Haemagglutinin; Region: HIM; pfam05662 416344015581 YadA-like C-terminal region; Region: YadA; pfam03895 416344015582 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_cladeC; cd03378 416344015583 active site clefts [active] 416344015584 zinc binding site [ion binding]; other site 416344015585 dimer interface [polypeptide binding]; other site 416344015586 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 416344015587 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 416344015588 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 416344015589 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 416344015590 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 416344015591 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 416344015592 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 416344015593 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 416344015594 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 416344015595 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 416344015596 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 416344015597 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 416344015598 putative substrate-binding site; other site 416344015599 nickel binding site [ion binding]; other site 416344015600 HupF/HypC family; Region: HupF_HypC; pfam01455 416344015601 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 416344015602 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 416344015603 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 416344015604 Rubredoxin; Region: Rubredoxin; pfam00301 416344015605 iron binding site [ion binding]; other site 416344015606 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 416344015607 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 416344015608 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 416344015609 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 416344015610 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 416344015611 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 416344015612 HupF/HypC family; Region: HupF_HypC; pfam01455 416344015613 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 416344015614 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 416344015615 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 416344015616 dimerization interface [polypeptide binding]; other site 416344015617 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 416344015618 ATP binding site [chemical binding]; other site 416344015619 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 416344015620 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 416344015621 active site 416344015622 phosphorylation site [posttranslational modification] 416344015623 intermolecular recognition site; other site 416344015624 dimerization interface [polypeptide binding]; other site 416344015625 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 416344015626 Walker A motif; other site 416344015627 ATP binding site [chemical binding]; other site 416344015628 Walker B motif; other site 416344015629 arginine finger; other site 416344015630 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344015631 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 416344015632 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 416344015633 hydrogenase 2 large subunit; Provisional; Region: PRK10467 416344015634 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 416344015635 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 416344015636 dimer interface [polypeptide binding]; other site 416344015637 phosphorylation site [posttranslational modification] 416344015638 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 416344015639 ATP binding site [chemical binding]; other site 416344015640 Mg2+ binding site [ion binding]; other site 416344015641 G-X-G motif; other site 416344015642 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 416344015643 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 416344015644 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 416344015645 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 416344015646 putative acyl-acceptor binding pocket; other site 416344015647 Phosphopantetheine attachment site; Region: PP-binding; cl09936 416344015648 acyl carrier protein; Provisional; Region: PRK05350 416344015649 Predicted membrane protein [Function unknown]; Region: COG4648 416344015650 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416344015651 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 416344015652 AMP binding site [chemical binding]; other site 416344015653 active site 416344015654 acyl-activating enzyme (AAE) consensus motif; other site 416344015655 CoA binding site [chemical binding]; other site 416344015656 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 416344015657 active site 2 [active] 416344015658 dimer interface [polypeptide binding]; other site 416344015659 active site 1 [active] 416344015660 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416344015661 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 416344015662 Ligand binding site; other site 416344015663 Putative Catalytic site; other site 416344015664 DXD motif; other site 416344015665 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 416344015666 putative acyl-acceptor binding pocket; other site 416344015667 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 416344015668 active sites [active] 416344015669 tetramer interface [polypeptide binding]; other site 416344015670 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 416344015671 active site 416344015672 Predicted exporter [General function prediction only]; Region: COG4258 416344015673 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 416344015674 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 416344015675 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 416344015676 dimer interface [polypeptide binding]; other site 416344015677 active site 416344015678 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 416344015679 putative active site 1 [active] 416344015680 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 416344015681 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 416344015682 NAD(P) binding site [chemical binding]; other site 416344015683 homotetramer interface [polypeptide binding]; other site 416344015684 homodimer interface [polypeptide binding]; other site 416344015685 active site 416344015686 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 416344015687 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 416344015688 dimer interface [polypeptide binding]; other site 416344015689 active site 416344015690 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 416344015691 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 416344015692 dimer interface [polypeptide binding]; other site 416344015693 active site 416344015694 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 416344015695 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 416344015696 S-adenosylmethionine binding site [chemical binding]; other site 416344015697 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 416344015698 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344015699 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 416344015700 Rubrerythrin [Energy production and conversion]; Region: COG1592 416344015701 binuclear metal center [ion binding]; other site 416344015702 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 416344015703 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 416344015704 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 416344015705 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 416344015706 active site 416344015707 phosphorylation site [posttranslational modification] 416344015708 intermolecular recognition site; other site 416344015709 dimerization interface [polypeptide binding]; other site 416344015710 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; cl17355 416344015711 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 416344015712 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 416344015713 dimer interface [polypeptide binding]; other site 416344015714 phosphorylation site [posttranslational modification] 416344015715 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 416344015716 ATP binding site [chemical binding]; other site 416344015717 Mg2+ binding site [ion binding]; other site 416344015718 G-X-G motif; other site 416344015719 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 416344015720 dimer interface [polypeptide binding]; other site 416344015721 [2Fe-2S] cluster binding site [ion binding]; other site 416344015722 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 416344015723 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 416344015724 Ligand binding site [chemical binding]; other site 416344015725 Electron transfer flavoprotein domain; Region: ETF; pfam01012 416344015726 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 416344015727 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 416344015728 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 416344015729 trimer interface [polypeptide binding]; other site 416344015730 active site 416344015731 substrate binding site [chemical binding]; other site 416344015732 CoA binding site [chemical binding]; other site 416344015733 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 416344015734 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 416344015735 active site 416344015736 catalytic residues [active] 416344015737 metal binding site [ion binding]; metal-binding site 416344015738 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 416344015739 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 416344015740 catalytic loop [active] 416344015741 iron binding site [ion binding]; other site 416344015742 chaperone protein HscA; Provisional; Region: hscA; PRK05183 416344015743 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 416344015744 nucleotide binding site [chemical binding]; other site 416344015745 putative NEF/HSP70 interaction site [polypeptide binding]; other site 416344015746 SBD interface [polypeptide binding]; other site 416344015747 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 416344015748 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 416344015749 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 416344015750 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 416344015751 trimerization site [polypeptide binding]; other site 416344015752 active site 416344015753 Nif-specific regulatory protein; Region: nifA; TIGR01817 416344015754 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 416344015755 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 416344015756 Walker A motif; other site 416344015757 ATP binding site [chemical binding]; other site 416344015758 Walker B motif; other site 416344015759 arginine finger; other site 416344015760 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344015761 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 416344015762 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 416344015763 FeS/SAM binding site; other site 416344015764 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 416344015765 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 416344015766 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 416344015767 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 416344015768 NifZ domain; Region: NifZ; pfam04319 416344015769 NifZ domain; Region: NifZ; pfam04319 416344015770 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 416344015771 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 416344015772 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 416344015773 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344015774 catalytic residue [active] 416344015775 NifT/FixU protein; Region: NifT; pfam06988 416344015776 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 416344015777 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 416344015778 inhibitor-cofactor binding pocket; inhibition site 416344015779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344015780 catalytic residue [active] 416344015781 SIR2-like domain; Region: SIR2_2; pfam13289 416344015782 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 416344015783 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 416344015784 catalytic loop [active] 416344015785 iron binding site [ion binding]; other site 416344015786 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 416344015787 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416344015788 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 416344015789 active site residue [active] 416344015790 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 416344015791 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 416344015792 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 416344015793 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 416344015794 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 416344015795 apolar tunnel; other site 416344015796 heme binding site [chemical binding]; other site 416344015797 dimerization interface [polypeptide binding]; other site 416344015798 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 416344015799 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 416344015800 Nucleotide-binding sites [chemical binding]; other site 416344015801 Walker A motif; other site 416344015802 Switch I region of nucleotide binding site; other site 416344015803 Fe4S4 binding sites [ion binding]; other site 416344015804 Switch II region of nucleotide binding site; other site 416344015805 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 416344015806 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 416344015807 MoFe protein alpha/beta subunit interactions; other site 416344015808 Alpha subunit P cluster binding residues; other site 416344015809 FeMoco binding residues [chemical binding]; other site 416344015810 MoFe protein alpha subunit/Fe protein contacts; other site 416344015811 MoFe protein dimer/ dimer interactions; other site 416344015812 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 416344015813 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 416344015814 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 416344015815 MoFe protein beta/alpha subunit interactions; other site 416344015816 Beta subunit P cluster binding residues; other site 416344015817 MoFe protein beta subunit/Fe protein contacts; other site 416344015818 MoFe protein dimer/ dimer interactions; other site 416344015819 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 416344015820 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 416344015821 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 416344015822 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 416344015823 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 416344015824 probable nitrogen fixation protein; Region: TIGR02935 416344015825 Rop-like; Region: Rop-like; pfam05082 416344015826 NifQ; Region: NifQ; pfam04891 416344015827 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 416344015828 heme-binding site [chemical binding]; other site 416344015829 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 416344015830 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 416344015831 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 416344015832 dimer interface [polypeptide binding]; other site 416344015833 conserved gate region; other site 416344015834 putative PBP binding loops; other site 416344015835 ABC-ATPase subunit interface; other site 416344015836 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 416344015837 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416344015838 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 416344015839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344015840 Walker A/P-loop; other site 416344015841 ATP binding site [chemical binding]; other site 416344015842 Q-loop/lid; other site 416344015843 ABC transporter signature motif; other site 416344015844 Walker B; other site 416344015845 D-loop; other site 416344015846 H-loop/switch region; other site 416344015847 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 416344015848 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 416344015849 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 416344015850 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 416344015851 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 416344015852 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416344015853 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 416344015854 ligand binding site [chemical binding]; other site 416344015855 flexible hinge region; other site 416344015856 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 416344015857 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 416344015858 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 416344015859 Transposase; Region: DEDD_Tnp_IS110; pfam01548 416344015860 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 416344015861 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 416344015862 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 416344015863 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416344015864 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 416344015865 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 416344015866 PRC-barrel domain; Region: PRC; pfam05239 416344015867 CsbD-like; Region: CsbD; pfam05532 416344015868 PRC-barrel domain; Region: PRC; pfam05239 416344015869 CsbD-like; Region: CsbD; pfam05532 416344015870 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 416344015871 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416344015872 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416344015873 CCC1-related family of proteins; Region: CCC1_like; cl00278 416344015874 FOG: CBS domain [General function prediction only]; Region: COG0517 416344015875 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 416344015876 BON domain; Region: BON; pfam04972 416344015877 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 416344015878 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 416344015879 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 416344015880 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 416344015881 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 416344015882 Flavin binding site [chemical binding]; other site 416344015883 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 416344015884 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 416344015885 Walker A motif; other site 416344015886 ATP binding site [chemical binding]; other site 416344015887 Walker B motif; other site 416344015888 arginine finger; other site 416344015889 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344015890 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 416344015891 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344015892 active site 416344015893 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 416344015894 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 416344015895 active site 416344015896 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 416344015897 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344015898 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 416344015899 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 416344015900 active site 416344015901 dimer interface [polypeptide binding]; other site 416344015902 non-prolyl cis peptide bond; other site 416344015903 insertion regions; other site 416344015904 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 416344015905 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 416344015906 Walker A/P-loop; other site 416344015907 ATP binding site [chemical binding]; other site 416344015908 Q-loop/lid; other site 416344015909 ABC transporter signature motif; other site 416344015910 Walker B; other site 416344015911 D-loop; other site 416344015912 H-loop/switch region; other site 416344015913 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 416344015914 TM-ABC transporter signature motif; other site 416344015915 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 416344015916 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 416344015917 TM-ABC transporter signature motif; other site 416344015918 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 416344015919 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 416344015920 putative ligand binding site [chemical binding]; other site 416344015921 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 416344015922 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 416344015923 Walker A/P-loop; other site 416344015924 ATP binding site [chemical binding]; other site 416344015925 Q-loop/lid; other site 416344015926 ABC transporter signature motif; other site 416344015927 Walker B; other site 416344015928 D-loop; other site 416344015929 H-loop/switch region; other site 416344015930 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 416344015931 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 416344015932 active site 416344015933 dimer interface [polypeptide binding]; other site 416344015934 non-prolyl cis peptide bond; other site 416344015935 insertion regions; other site 416344015936 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 416344015937 active site residue [active] 416344015938 serine O-acetyltransferase; Region: cysE; TIGR01172 416344015939 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 416344015940 trimer interface [polypeptide binding]; other site 416344015941 active site 416344015942 substrate binding site [chemical binding]; other site 416344015943 CoA binding site [chemical binding]; other site 416344015944 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416344015945 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 416344015946 non-specific DNA binding site [nucleotide binding]; other site 416344015947 salt bridge; other site 416344015948 sequence-specific DNA binding site [nucleotide binding]; other site 416344015949 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 416344015950 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 416344015951 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416344015952 catalytic residue [active] 416344015953 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 416344015954 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 416344015955 substrate binding pocket [chemical binding]; other site 416344015956 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 416344015957 membrane-bound complex binding site; other site 416344015958 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 416344015959 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 416344015960 dimer interface [polypeptide binding]; other site 416344015961 conserved gate region; other site 416344015962 putative PBP binding loops; other site 416344015963 ABC-ATPase subunit interface; other site 416344015964 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 416344015965 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 416344015966 Walker A/P-loop; other site 416344015967 ATP binding site [chemical binding]; other site 416344015968 Q-loop/lid; other site 416344015969 ABC transporter signature motif; other site 416344015970 Walker B; other site 416344015971 D-loop; other site 416344015972 H-loop/switch region; other site 416344015973 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 416344015974 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 416344015975 ring oligomerisation interface [polypeptide binding]; other site 416344015976 ATP/Mg binding site [chemical binding]; other site 416344015977 stacking interactions; other site 416344015978 hinge regions; other site 416344015979 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 416344015980 oligomerisation interface [polypeptide binding]; other site 416344015981 mobile loop; other site 416344015982 roof hairpin; other site 416344015983 helix_turn_helix, Arsenical Resistance Operon Repressor; Region: HTH_ARSR; smart00418 416344015984 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 416344015985 Helix-turn-helix domain; Region: HTH_28; pfam13518 416344015986 Winged helix-turn helix; Region: HTH_29; pfam13551 416344015987 Integrase core domain; Region: rve; pfam00665 416344015988 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 416344015989 DNA-binding interface [nucleotide binding]; DNA binding site 416344015990 Winged helix-turn helix; Region: HTH_29; pfam13551 416344015991 putative transposase OrfB; Reviewed; Region: PHA02517 416344015992 HTH-like domain; Region: HTH_21; pfam13276 416344015993 Integrase core domain; Region: rve; pfam00665 416344015994 Integrase core domain; Region: rve_3; pfam13683 416344015995 PAAR motif; Region: PAAR_motif; pfam05488 416344015996 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 416344015997 RHS Repeat; Region: RHS_repeat; cl11982 416344015998 RHS Repeat; Region: RHS_repeat; pfam05593 416344015999 RHS protein; Region: RHS; pfam03527 416344016000 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 416344016001 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 416344016002 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 416344016003 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 416344016004 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 416344016005 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 416344016006 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 416344016007 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344016008 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 416344016009 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 416344016010 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 416344016011 Transposase; Region: DEDD_Tnp_IS110; pfam01548 416344016012 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 416344016013 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 416344016014 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416344016015 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 416344016016 NAD binding site [chemical binding]; other site 416344016017 putative substrate binding site 2 [chemical binding]; other site 416344016018 putative substrate binding site 1 [chemical binding]; other site 416344016019 active site 416344016020 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 416344016021 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 416344016022 inhibitor-cofactor binding pocket; inhibition site 416344016023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344016024 catalytic residue [active] 416344016025 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 416344016026 acyl-CoA synthetase; Validated; Region: PRK05850 416344016027 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 416344016028 acyl-activating enzyme (AAE) consensus motif; other site 416344016029 active site 416344016030 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 416344016031 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 416344016032 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 416344016033 active site 416344016034 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 416344016035 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 416344016036 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 416344016037 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 416344016038 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 416344016039 putative NADP binding site [chemical binding]; other site 416344016040 active site 416344016041 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 416344016042 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 416344016043 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 416344016044 active site 416344016045 Acyl transferase domain; Region: Acyl_transf_1; cl08282 416344016046 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 416344016047 KR domain; Region: KR; pfam08659 416344016048 putative NADP binding site [chemical binding]; other site 416344016049 active site 416344016050 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 416344016051 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 416344016052 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 416344016053 active site 416344016054 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 416344016055 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 416344016056 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344016057 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 416344016058 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 416344016059 inhibitor-cofactor binding pocket; inhibition site 416344016060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344016061 catalytic residue [active] 416344016062 Condensation domain; Region: Condensation; pfam00668 416344016063 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344016064 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 416344016065 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344016066 acyl-activating enzyme (AAE) consensus motif; other site 416344016067 AMP binding site [chemical binding]; other site 416344016068 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344016069 Condensation domain; Region: Condensation; pfam00668 416344016070 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344016071 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 416344016072 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 416344016073 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 416344016074 Predicted membrane protein (DUF2070); Region: DUF2070; pfam09843 416344016075 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344016076 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 416344016077 acyl-activating enzyme (AAE) consensus motif; other site 416344016078 AMP binding site [chemical binding]; other site 416344016079 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344016080 Condensation domain; Region: Condensation; pfam00668 416344016081 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 416344016082 Condensation domain; Region: Condensation; pfam00668 416344016083 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344016084 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344016085 acyl-activating enzyme (AAE) consensus motif; other site 416344016086 AMP binding site [chemical binding]; other site 416344016087 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344016088 Condensation domain; Region: Condensation; pfam00668 416344016089 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 416344016090 Condensation domain; Region: Condensation; pfam00668 416344016091 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344016092 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 416344016093 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344016094 acyl-activating enzyme (AAE) consensus motif; other site 416344016095 AMP binding site [chemical binding]; other site 416344016096 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344016097 Condensation domain; Region: Condensation; pfam00668 416344016098 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344016099 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 416344016100 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344016101 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 416344016102 acyl-activating enzyme (AAE) consensus motif; other site 416344016103 AMP binding site [chemical binding]; other site 416344016104 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344016105 Condensation domain; Region: Condensation; pfam00668 416344016106 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344016107 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 416344016108 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 416344016109 acyl-activating enzyme (AAE) consensus motif; other site 416344016110 AMP binding site [chemical binding]; other site 416344016111 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344016112 Condensation domain; Region: Condensation; pfam00668 416344016113 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344016114 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 416344016115 Condensation domain; Region: Condensation; pfam00668 416344016116 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 416344016117 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 416344016118 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 416344016119 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 416344016120 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 416344016121 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416344016122 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 416344016123 Walker A/P-loop; other site 416344016124 ATP binding site [chemical binding]; other site 416344016125 Q-loop/lid; other site 416344016126 ABC transporter signature motif; other site 416344016127 Walker B; other site 416344016128 D-loop; other site 416344016129 H-loop/switch region; other site 416344016130 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344016131 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 416344016132 DNA binding residues [nucleotide binding] 416344016133 dimerization interface [polypeptide binding]; other site 416344016134 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 416344016135 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344016136 dimerization interface [polypeptide binding]; other site 416344016137 DNA binding residues [nucleotide binding] 416344016138 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 416344016139 FAD binding domain; Region: FAD_binding_4; pfam01565 416344016140 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 416344016141 DoxX; Region: DoxX; pfam07681 416344016142 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 416344016143 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 416344016144 active site 416344016145 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 416344016146 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 416344016147 Isochorismatase family; Region: Isochorismatase; pfam00857 416344016148 catalytic triad [active] 416344016149 dimer interface [polypeptide binding]; other site 416344016150 conserved cis-peptide bond; other site 416344016151 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 416344016152 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 416344016153 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344016154 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016155 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 416344016156 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 416344016157 NAD(P) binding site [chemical binding]; other site 416344016158 catalytic residues [active] 416344016159 choline dehydrogenase; Validated; Region: PRK02106 416344016160 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 416344016161 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 416344016162 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 416344016163 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 416344016164 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344016165 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 416344016166 trimer interface [polypeptide binding]; other site 416344016167 eyelet of channel; other site 416344016168 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 416344016169 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 416344016170 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 416344016171 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 416344016172 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 416344016173 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 416344016174 Cysteine-rich domain; Region: CCG; pfam02754 416344016175 Cysteine-rich domain; Region: CCG; pfam02754 416344016176 D-lactate dehydrogenase; Provisional; Region: PRK11183 416344016177 FAD binding domain; Region: FAD_binding_4; pfam01565 416344016178 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 416344016179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344016180 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 416344016181 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 416344016182 putative dimerization interface [polypeptide binding]; other site 416344016183 putative substrate binding pocket [chemical binding]; other site 416344016184 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 416344016185 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 416344016186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344016187 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344016188 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 416344016189 dimerization interface [polypeptide binding]; other site 416344016190 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 416344016191 Transposase; Region: DEDD_Tnp_IS110; pfam01548 416344016192 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 416344016193 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 416344016194 dimer interface [polypeptide binding]; other site 416344016195 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 416344016196 dimerization interface [polypeptide binding]; other site 416344016197 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344016198 dimer interface [polypeptide binding]; other site 416344016199 putative CheW interface [polypeptide binding]; other site 416344016200 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416344016201 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 416344016202 Walker A/P-loop; other site 416344016203 ATP binding site [chemical binding]; other site 416344016204 Q-loop/lid; other site 416344016205 ABC transporter signature motif; other site 416344016206 Walker B; other site 416344016207 D-loop; other site 416344016208 H-loop/switch region; other site 416344016209 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 416344016210 dimer interface [polypeptide binding]; other site 416344016211 conserved gate region; other site 416344016212 putative PBP binding loops; other site 416344016213 ABC-ATPase subunit interface; other site 416344016214 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344016215 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 416344016216 substrate binding pocket [chemical binding]; other site 416344016217 membrane-bound complex binding site; other site 416344016218 hinge residues; other site 416344016219 HAMP domain; Region: HAMP; pfam00672 416344016220 dimerization interface [polypeptide binding]; other site 416344016221 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 416344016222 dimer interface [polypeptide binding]; other site 416344016223 phosphorylation site [posttranslational modification] 416344016224 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 416344016225 ATP binding site [chemical binding]; other site 416344016226 G-X-G motif; other site 416344016227 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344016228 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 416344016229 active site 416344016230 phosphorylation site [posttranslational modification] 416344016231 intermolecular recognition site; other site 416344016232 dimerization interface [polypeptide binding]; other site 416344016233 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 416344016234 DNA binding site [nucleotide binding] 416344016235 Cytochrome b562; Region: Cytochrom_B562; pfam07361 416344016236 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 416344016237 Hemerythrin-like domain; Region: Hr-like; cd12108 416344016238 Fe binding site [ion binding]; other site 416344016239 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 416344016240 Ligand Binding Site [chemical binding]; other site 416344016241 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 416344016242 Ligand Binding Site [chemical binding]; other site 416344016243 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 416344016244 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416344016245 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416344016246 Hemerythrin-like domain; Region: Hr-like; cd12108 416344016247 Fe binding site [ion binding]; other site 416344016248 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 416344016249 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 416344016250 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 416344016251 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 416344016252 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 416344016253 Dihaem cytochrome c; Region: DHC; pfam09626 416344016254 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 416344016255 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 416344016256 Beta-lactamase; Region: Beta-lactamase; pfam00144 416344016257 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 416344016258 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 416344016259 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416344016260 MULE transposase domain; Region: MULE; pfam10551 416344016261 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 416344016262 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 416344016263 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344016264 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 416344016265 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344016266 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344016267 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 416344016268 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 416344016269 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 416344016270 putative active site [active] 416344016271 putative metal binding site [ion binding]; other site 416344016272 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 416344016273 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 416344016274 putative substrate binding site [chemical binding]; other site 416344016275 putative ATP binding site [chemical binding]; other site 416344016276 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 416344016277 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 416344016278 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 416344016279 active site 416344016280 dimer interface [polypeptide binding]; other site 416344016281 effector binding site; other site 416344016282 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 416344016283 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 416344016284 Walker A motif; other site 416344016285 ATP binding site [chemical binding]; other site 416344016286 Walker B motif; other site 416344016287 arginine finger; other site 416344016288 Peptidase family M41; Region: Peptidase_M41; pfam01434 416344016289 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 416344016290 BON domain; Region: BON; pfam04972 416344016291 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344016292 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344016293 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416344016294 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 416344016295 Walker A/P-loop; other site 416344016296 ATP binding site [chemical binding]; other site 416344016297 Q-loop/lid; other site 416344016298 ABC transporter signature motif; other site 416344016299 Walker B; other site 416344016300 D-loop; other site 416344016301 H-loop/switch region; other site 416344016302 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416344016303 Walker A/P-loop; other site 416344016304 ATP binding site [chemical binding]; other site 416344016305 Q-loop/lid; other site 416344016306 ABC transporter signature motif; other site 416344016307 Walker B; other site 416344016308 D-loop; other site 416344016309 H-loop/switch region; other site 416344016310 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416344016311 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 416344016312 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 416344016313 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416344016314 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 416344016315 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 416344016316 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416344016317 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 416344016318 FtsX-like permease family; Region: FtsX; pfam02687 416344016319 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416344016320 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416344016321 Walker A/P-loop; other site 416344016322 ATP binding site [chemical binding]; other site 416344016323 Q-loop/lid; other site 416344016324 ABC transporter signature motif; other site 416344016325 Walker B; other site 416344016326 D-loop; other site 416344016327 H-loop/switch region; other site 416344016328 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344016329 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344016330 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 416344016331 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 416344016332 Beta-Casp domain; Region: Beta-Casp; pfam10996 416344016333 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 416344016334 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416344016335 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 416344016336 DNA-binding interface [nucleotide binding]; DNA binding site 416344016337 Integrase core domain; Region: rve; pfam00665 416344016338 transposase/IS protein; Provisional; Region: PRK09183 416344016339 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 416344016340 Walker A motif; other site 416344016341 ATP binding site [chemical binding]; other site 416344016342 Walker B motif; other site 416344016343 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 416344016344 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 416344016345 catalytic Zn binding site [ion binding]; other site 416344016346 structural Zn binding site [ion binding]; other site 416344016347 NAD(P) binding site [chemical binding]; other site 416344016348 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 416344016349 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 416344016350 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 416344016351 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 416344016352 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 416344016353 NAD(P) binding site [chemical binding]; other site 416344016354 homotetramer interface [polypeptide binding]; other site 416344016355 homodimer interface [polypeptide binding]; other site 416344016356 active site 416344016357 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 416344016358 Ligand Binding Site [chemical binding]; other site 416344016359 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 416344016360 Ligand Binding Site [chemical binding]; other site 416344016361 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 416344016362 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 416344016363 Ligand Binding Site [chemical binding]; other site 416344016364 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 416344016365 Ligand Binding Site [chemical binding]; other site 416344016366 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 416344016367 Ligand Binding Site [chemical binding]; other site 416344016368 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 416344016369 Ligand Binding Site [chemical binding]; other site 416344016370 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416344016371 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 416344016372 active site 416344016373 phosphorylation site [posttranslational modification] 416344016374 intermolecular recognition site; other site 416344016375 dimerization interface [polypeptide binding]; other site 416344016376 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 416344016377 DNA binding residues [nucleotide binding] 416344016378 dimerization interface [polypeptide binding]; other site 416344016379 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 416344016380 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 416344016381 ligand binding site [chemical binding]; other site 416344016382 flexible hinge region; other site 416344016383 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 416344016384 putative switch regulator; other site 416344016385 non-specific DNA interactions [nucleotide binding]; other site 416344016386 DNA binding site [nucleotide binding] 416344016387 sequence specific DNA binding site [nucleotide binding]; other site 416344016388 putative cAMP binding site [chemical binding]; other site 416344016389 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 416344016390 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 416344016391 putative NAD(P) binding site [chemical binding]; other site 416344016392 putative substrate binding site [chemical binding]; other site 416344016393 catalytic Zn binding site [ion binding]; other site 416344016394 structural Zn binding site [ion binding]; other site 416344016395 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 416344016396 FMN binding site [chemical binding]; other site 416344016397 dimer interface [polypeptide binding]; other site 416344016398 Cytochrome c; Region: Cytochrom_C; cl11414 416344016399 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 416344016400 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 416344016401 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 416344016402 Sulfate transporter family; Region: Sulfate_transp; pfam00916 416344016403 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 416344016404 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344016405 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344016406 metal binding site [ion binding]; metal-binding site 416344016407 active site 416344016408 I-site; other site 416344016409 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344016410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344016411 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 416344016412 substrate binding pocket [chemical binding]; other site 416344016413 dimerization interface [polypeptide binding]; other site 416344016414 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 416344016415 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 416344016416 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 416344016417 putative NAD(P) binding site [chemical binding]; other site 416344016418 short chain dehydrogenase; Provisional; Region: PRK12937 416344016419 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 416344016420 NADP binding site [chemical binding]; other site 416344016421 active site 416344016422 steroid binding site; other site 416344016423 short chain dehydrogenase; Provisional; Region: PRK12937 416344016424 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 416344016425 NADP binding site [chemical binding]; other site 416344016426 homodimer interface [polypeptide binding]; other site 416344016427 active site 416344016428 substrate binding site [chemical binding]; other site 416344016429 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 416344016430 BON domain; Region: BON; pfam04972 416344016431 BON domain; Region: BON; pfam04972 416344016432 BON domain; Region: BON; pfam04972 416344016433 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 416344016434 putative FMN binding site [chemical binding]; other site 416344016435 NADPH bind site [chemical binding]; other site 416344016436 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 416344016437 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 416344016438 putative dimer interface [polypeptide binding]; other site 416344016439 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 416344016440 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 416344016441 Ligand Binding Site [chemical binding]; other site 416344016442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 416344016443 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 416344016444 AAA domain; Region: AAA_33; pfam13671 416344016445 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 416344016446 active site 416344016447 FOG: CBS domain [General function prediction only]; Region: COG0517 416344016448 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 416344016449 FOG: CBS domain [General function prediction only]; Region: COG0517 416344016450 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 416344016451 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416344016452 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 416344016453 ligand binding site [chemical binding]; other site 416344016454 flexible hinge region; other site 416344016455 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; cl17320 416344016456 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 416344016457 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 416344016458 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416344016459 substrate binding pocket [chemical binding]; other site 416344016460 membrane-bound complex binding site; other site 416344016461 hinge residues; other site 416344016462 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 416344016463 trimer interface [polypeptide binding]; other site 416344016464 YadA-like C-terminal region; Region: YadA; pfam03895 416344016465 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 416344016466 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 416344016467 active site 416344016468 phosphorylation site [posttranslational modification] 416344016469 intermolecular recognition site; other site 416344016470 dimerization interface [polypeptide binding]; other site 416344016471 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344016472 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016473 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 416344016474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344016475 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 416344016476 dimerization interface [polypeptide binding]; other site 416344016477 Predicted membrane protein [Function unknown]; Region: COG2259 416344016478 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344016479 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 416344016480 DNA binding site [nucleotide binding] 416344016481 Predicted ATPase [General function prediction only]; Region: COG3903 416344016482 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 416344016483 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416344016484 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416344016485 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416344016486 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416344016487 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 416344016488 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416344016489 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 416344016490 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344016491 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 416344016492 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 416344016493 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416344016494 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344016495 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 416344016496 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 416344016497 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 416344016498 PAAR motif; Region: PAAR_motif; pfam05488 416344016499 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 416344016500 Integrase core domain; Region: rve_3; pfam13683 416344016501 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 416344016502 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 416344016503 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 416344016504 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 416344016505 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 416344016506 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 416344016507 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 416344016508 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 416344016509 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 416344016510 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 416344016511 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 416344016512 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 416344016513 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 416344016514 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 416344016515 Protein of unknown function (DUF877); Region: DUF877; pfam05943 416344016516 Protein of unknown function (DUF770); Region: DUF770; pfam05591 416344016517 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 416344016518 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 416344016519 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 416344016520 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 416344016521 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344016522 ligand binding site [chemical binding]; other site 416344016523 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 416344016524 Ras GTPase Activating Domain; Region: RasGAP; cl02569 416344016525 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 416344016526 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 416344016527 Walker A motif; other site 416344016528 ATP binding site [chemical binding]; other site 416344016529 Walker B motif; other site 416344016530 arginine finger; other site 416344016531 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 416344016532 Walker A motif; other site 416344016533 ATP binding site [chemical binding]; other site 416344016534 Walker B motif; other site 416344016535 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 416344016536 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 416344016537 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416344016538 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_9; cd07245 416344016539 dimer interface [polypeptide binding]; other site 416344016540 putative metal binding site [ion binding]; other site 416344016541 hypothetical protein; Provisional; Region: PRK07236 416344016542 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 416344016543 Protein of unknown function, DUF485; Region: DUF485; pfam04341 416344016544 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 416344016545 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 416344016546 Na binding site [ion binding]; other site 416344016547 Amidohydrolase; Region: Amidohydro_2; pfam04909 416344016548 Cytochrome c; Region: Cytochrom_C; pfam00034 416344016549 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 416344016550 Cytochrome c; Region: Cytochrom_C; pfam00034 416344016551 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 416344016552 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 416344016553 catalytic loop [active] 416344016554 iron binding site [ion binding]; other site 416344016555 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 416344016556 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 416344016557 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344016558 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 416344016559 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 416344016560 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344016561 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344016562 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 416344016563 putative effector binding pocket; other site 416344016564 putative dimerization interface [polypeptide binding]; other site 416344016565 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 416344016566 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 416344016567 putative substrate translocation pore; other site 416344016568 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 416344016569 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 416344016570 FMN binding site [chemical binding]; other site 416344016571 active site 416344016572 substrate binding site [chemical binding]; other site 416344016573 catalytic residue [active] 416344016574 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 416344016575 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 416344016576 active site 416344016577 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344016578 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 416344016579 DNA binding site [nucleotide binding] 416344016580 AAA ATPase domain; Region: AAA_16; pfam13191 416344016581 Predicted ATPase [General function prediction only]; Region: COG3903 416344016582 Walker A motif; other site 416344016583 ATP binding site [chemical binding]; other site 416344016584 Walker B motif; other site 416344016585 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344016586 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016587 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344016589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344016590 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 416344016591 putative effector binding pocket; other site 416344016592 dimerization interface [polypeptide binding]; other site 416344016593 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 416344016594 SGNH_hydrolase, or GDSL_hydrolase, is 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 active site closely...; Region: SGNH_hydrolase; cl01053 416344016595 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 416344016596 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 416344016597 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344016598 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344016599 hypothetical protein; Provisional; Region: PRK07236 416344016600 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 416344016601 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 416344016602 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 416344016603 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 416344016604 HlyD family secretion protein; Region: HlyD_3; pfam13437 416344016605 Outer membrane efflux protein; Region: OEP; pfam02321 416344016606 Outer membrane efflux protein; Region: OEP; pfam02321 416344016607 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 416344016608 HAMP domain; Region: HAMP; pfam00672 416344016609 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 416344016610 dimer interface [polypeptide binding]; other site 416344016611 phosphorylation site [posttranslational modification] 416344016612 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 416344016613 ATP binding site [chemical binding]; other site 416344016614 Mg2+ binding site [ion binding]; other site 416344016615 G-X-G motif; other site 416344016616 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 416344016617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344016618 Coenzyme A binding pocket [chemical binding]; other site 416344016619 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416344016620 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 416344016621 metal binding site [ion binding]; metal-binding site 416344016622 putative dimer interface [polypeptide binding]; other site 416344016623 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 416344016624 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344016625 NAD binding site [chemical binding]; other site 416344016626 catalytic residues [active] 416344016627 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344016628 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344016629 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344016630 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344016631 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 416344016632 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016633 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344016634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016635 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 416344016636 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416344016637 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 416344016638 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344016639 Walker A/P-loop; other site 416344016640 ATP binding site [chemical binding]; other site 416344016641 Q-loop/lid; other site 416344016642 ABC transporter signature motif; other site 416344016643 Walker B; other site 416344016644 D-loop; other site 416344016645 H-loop/switch region; other site 416344016646 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416344016647 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416344016648 Walker A/P-loop; other site 416344016649 ATP binding site [chemical binding]; other site 416344016650 Q-loop/lid; other site 416344016651 ABC transporter signature motif; other site 416344016652 Walker B; other site 416344016653 D-loop; other site 416344016654 H-loop/switch region; other site 416344016655 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 416344016656 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416344016657 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 416344016658 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416344016659 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 416344016660 dimer interface [polypeptide binding]; other site 416344016661 conserved gate region; other site 416344016662 putative PBP binding loops; other site 416344016663 ABC-ATPase subunit interface; other site 416344016664 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416344016665 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 416344016666 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 416344016667 Cache domain; Region: Cache_1; pfam02743 416344016668 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 416344016669 dimerization interface [polypeptide binding]; other site 416344016670 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344016671 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344016672 dimer interface [polypeptide binding]; other site 416344016673 putative CheW interface [polypeptide binding]; other site 416344016674 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 416344016675 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344016676 dimer interface [polypeptide binding]; other site 416344016677 putative CheW interface [polypeptide binding]; other site 416344016678 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 416344016679 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 416344016680 motif II; other site 416344016681 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 416344016682 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416344016683 Coenzyme A binding pocket [chemical binding]; other site 416344016684 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 416344016685 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 416344016686 putative ligand binding site [chemical binding]; other site 416344016687 NAD binding site [chemical binding]; other site 416344016688 dimerization interface [polypeptide binding]; other site 416344016689 catalytic site [active] 416344016690 hypothetical protein; Provisional; Region: PRK05965 416344016691 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 416344016692 inhibitor-cofactor binding pocket; inhibition site 416344016693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416344016694 catalytic residue [active] 416344016695 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 416344016696 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 416344016697 putative DNA binding site [nucleotide binding]; other site 416344016698 putative Zn2+ binding site [ion binding]; other site 416344016699 AsnC family; Region: AsnC_trans_reg; pfam01037 416344016700 succinic semialdehyde dehydrogenase; Region: PLN02278 416344016701 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 416344016702 tetramerization interface [polypeptide binding]; other site 416344016703 NAD(P) binding site [chemical binding]; other site 416344016704 catalytic residues [active] 416344016705 Cache domain; Region: Cache_1; pfam02743 416344016706 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 416344016707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 416344016708 metal binding site [ion binding]; metal-binding site 416344016709 active site 416344016710 I-site; other site 416344016711 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 416344016712 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 416344016713 dimer interface [polypeptide binding]; other site 416344016714 putative CheW interface [polypeptide binding]; other site 416344016715 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 416344016716 active site 416344016717 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 416344016718 Protein of unknown function DUF72; Region: DUF72; pfam01904 416344016719 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 416344016720 putative effector binding pocket; other site 416344016721 dimerization interface [polypeptide binding]; other site 416344016722 Cupin domain; Region: Cupin_2; cl17218 416344016723 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 416344016724 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416344016725 active site 416344016726 catalytic tetrad [active] 416344016727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344016728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344016729 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 416344016730 putative effector binding pocket; other site 416344016731 putative dimerization interface [polypeptide binding]; other site 416344016732 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 416344016733 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 416344016734 transmembrane helices; other site 416344016735 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 416344016736 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344016737 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 416344016738 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 416344016739 active site 416344016740 phosphorylation site [posttranslational modification] 416344016741 intermolecular recognition site; other site 416344016742 dimerization interface [polypeptide binding]; other site 416344016743 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 416344016744 Walker A motif; other site 416344016745 ATP binding site [chemical binding]; other site 416344016746 Walker B motif; other site 416344016747 arginine finger; other site 416344016748 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344016749 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 416344016750 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 416344016751 ATP binding site [chemical binding]; other site 416344016752 G-X-G motif; other site 416344016753 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 416344016754 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 416344016755 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344016756 TM-ABC transporter signature motif; other site 416344016757 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 416344016758 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416344016759 Walker A/P-loop; other site 416344016760 ATP binding site [chemical binding]; other site 416344016761 Q-loop/lid; other site 416344016762 ABC transporter signature motif; other site 416344016763 Walker B; other site 416344016764 D-loop; other site 416344016765 H-loop/switch region; other site 416344016766 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416344016767 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 416344016768 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 416344016769 putative ligand binding site [chemical binding]; other site 416344016770 xylulokinase; Provisional; Region: PRK15027 416344016771 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 416344016772 N- and C-terminal domain interface [polypeptide binding]; other site 416344016773 active site 416344016774 MgATP binding site [chemical binding]; other site 416344016775 catalytic site [active] 416344016776 metal binding site [ion binding]; metal-binding site 416344016777 xylulose binding site [chemical binding]; other site 416344016778 homodimer interface [polypeptide binding]; other site 416344016779 xylose isomerase; Provisional; Region: PRK05474 416344016780 xylose isomerase; Region: xylose_isom_A; TIGR02630 416344016781 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 416344016782 putative dimerization interface [polypeptide binding]; other site 416344016783 putative ligand binding site [chemical binding]; other site 416344016784 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416344016785 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344016786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016787 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 416344016788 active site 416344016789 catalytic residues [active] 416344016790 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 416344016791 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416344016792 putative substrate translocation pore; other site 416344016793 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 416344016794 SnoaL-like domain; Region: SnoaL_2; pfam12680 416344016795 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 416344016796 Autoinducer binding domain; Region: Autoind_bind; pfam03472 416344016797 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 416344016798 DNA binding residues [nucleotide binding] 416344016799 dimerization interface [polypeptide binding]; other site 416344016800 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 416344016801 putative metal binding site [ion binding]; other site 416344016802 putative homodimer interface [polypeptide binding]; other site 416344016803 putative homotetramer interface [polypeptide binding]; other site 416344016804 putative homodimer-homodimer interface [polypeptide binding]; other site 416344016805 putative allosteric switch controlling residues; other site 416344016806 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 416344016807 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 416344016808 substrate binding site [chemical binding]; other site 416344016809 catalytic Zn binding site [ion binding]; other site 416344016810 NAD binding site [chemical binding]; other site 416344016811 structural Zn binding site [ion binding]; other site 416344016812 dimer interface [polypeptide binding]; other site 416344016813 NnrS protein; Region: NnrS; pfam05940 416344016814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016815 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344016816 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016817 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 416344016818 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 416344016819 SnoaL-like domain; Region: SnoaL_2; pfam12680 416344016820 short chain dehydrogenase; Provisional; Region: PRK08265 416344016821 classical (c) SDRs; Region: SDR_c; cd05233 416344016822 NAD(P) binding site [chemical binding]; other site 416344016823 active site 416344016824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416344016825 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 416344016826 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 416344016827 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 416344016828 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344016829 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 416344016830 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416344016831 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 416344016832 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 416344016833 hexamer interface [polypeptide binding]; other site 416344016834 Walker B motif; other site 416344016835 Response regulator receiver domain; Region: Response_reg; pfam00072 416344016836 AAA domain; Region: AAA_31; pfam13614 416344016837 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 416344016838 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 416344016839 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 416344016840 TadE-like protein; Region: TadE; pfam07811 416344016841 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 416344016842 TadE-like protein; Region: TadE; pfam07811 416344016843 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 416344016844 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 416344016845 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 416344016846 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 416344016847 Walker A motif; other site 416344016848 ATP binding site [chemical binding]; other site 416344016849 Flp/Fap pilin component; Region: Flp_Fap; cl01585 416344016850 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 416344016851 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 416344016852 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416344016853 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416344016854 Ligand binding site; other site 416344016855 Putative Catalytic site; other site 416344016856 DXD motif; other site 416344016857 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 416344016858 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 416344016859 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 416344016860 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 416344016861 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344016862 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 416344016863 dimer interface [polypeptide binding]; other site 416344016864 phosphorylation site [posttranslational modification] 416344016865 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 416344016866 ATP binding site [chemical binding]; other site 416344016867 Mg2+ binding site [ion binding]; other site 416344016868 G-X-G motif; other site 416344016869 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 416344016870 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 416344016871 active site 416344016872 phosphorylation site [posttranslational modification] 416344016873 intermolecular recognition site; other site 416344016874 dimerization interface [polypeptide binding]; other site 416344016875 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416344016876 Zn2+ binding site [ion binding]; other site 416344016877 Mg2+ binding site [ion binding]; other site 416344016878 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 416344016879 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 416344016880 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 416344016881 substrate binding pocket [chemical binding]; other site 416344016882 hinge residues; other site 416344016883 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 416344016884 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416344016885 active site 416344016886 catalytic tetrad [active] 416344016887 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344016888 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 416344016889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416344016890 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344016891 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 416344016892 putative effector binding pocket; other site 416344016893 putative dimerization interface [polypeptide binding]; other site 416344016894 hypothetical protein; Provisional; Region: PRK07208 416344016895 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416344016896 UDP-galactopyranose mutase; Region: GLF; pfam03275 416344016897 Predicted membrane protein [Function unknown]; Region: COG2246 416344016898 GtrA-like protein; Region: GtrA; pfam04138 416344016899 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 416344016900 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 416344016901 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 416344016902 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344016903 Walker A/P-loop; other site 416344016904 ATP binding site [chemical binding]; other site 416344016905 Q-loop/lid; other site 416344016906 ABC transporter signature motif; other site 416344016907 Walker B; other site 416344016908 D-loop; other site 416344016909 H-loop/switch region; other site 416344016910 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344016911 Walker A/P-loop; other site 416344016912 ATP binding site [chemical binding]; other site 416344016913 Q-loop/lid; other site 416344016914 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 416344016915 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 416344016916 H-NS histone family; Region: Histone_HNS; pfam00816 416344016917 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 416344016918 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 416344016919 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 416344016920 active site 416344016921 substrate binding site [chemical binding]; other site 416344016922 metal binding site [ion binding]; metal-binding site 416344016923 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 416344016924 binding surface 416344016925 TPR motif; other site 416344016926 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 416344016927 TPR motif; other site 416344016928 binding surface 416344016929 Tetratricopeptide repeat; Region: TPR_16; pfam13432 416344016930 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 416344016931 TPR motif; other site 416344016932 binding surface 416344016933 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 416344016934 TPR motif; other site 416344016935 binding surface 416344016936 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 416344016937 cellulose synthase regulator protein; Provisional; Region: PRK11114 416344016938 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 416344016939 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 416344016940 DXD motif; other site 416344016941 PilZ domain; Region: PilZ; pfam07238 416344016942 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 416344016943 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 416344016944 P-loop; other site 416344016945 Magnesium ion binding site [ion binding]; other site 416344016946 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 416344016947 Magnesium ion binding site [ion binding]; other site 416344016948 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 416344016949 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 416344016950 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 416344016951 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 416344016952 active site 416344016953 tetramer interface; other site 416344016954 putative glycosyl transferase; Provisional; Region: PRK10307 416344016955 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 416344016956 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 416344016957 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 416344016958 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 416344016959 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344016960 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 416344016961 putative ADP-binding pocket [chemical binding]; other site 416344016962 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 416344016963 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 416344016964 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344016965 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 416344016966 putative ADP-binding pocket [chemical binding]; other site 416344016967 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: GT1_like_1; cd04950 416344016968 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416344016969 putative homodimer interface [polypeptide binding]; other site 416344016970 tyrosine kinase; Provisional; Region: PRK11519 416344016971 Chain length determinant protein; Region: Wzz; pfam02706 416344016972 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 416344016973 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 416344016974 Low molecular weight phosphatase family; Region: LMWPc; cl00105 416344016975 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 416344016976 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 416344016977 SLBB domain; Region: SLBB; pfam10531 416344016978 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 416344016979 Bacterial sugar transferase; Region: Bac_transf; pfam02397 416344016980 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 416344016981 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 416344016982 Substrate binding site; other site 416344016983 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 416344016984 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344016985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016987 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 416344016988 nudix motif; other site 416344016989 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 416344016990 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 416344016991 conserved cys residue [active] 416344016992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344016993 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344016994 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 416344016995 trimer interface [polypeptide binding]; other site 416344016996 eyelet of channel; other site 416344016997 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416344016998 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 416344016999 ligand binding site [chemical binding]; other site 416344017000 CHASE2 domain; Region: CHASE2; cl01732 416344017001 YadA-like C-terminal region; Region: YadA; pfam03895 416344017002 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 416344017003 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416344017004 active site 416344017005 phosphorylation site [posttranslational modification] 416344017006 intermolecular recognition site; other site 416344017007 dimerization interface [polypeptide binding]; other site 416344017008 Response regulator receiver domain; Region: Response_reg; pfam00072 416344017009 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 416344017010 active site 416344017011 phosphorylation site [posttranslational modification] 416344017012 intermolecular recognition site; other site 416344017013 dimerization interface [polypeptide binding]; other site 416344017014 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416344017015 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344017016 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 416344017017 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 416344017018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416344017019 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 416344017020 dimer interface [polypeptide binding]; other site 416344017021 phosphorylation site [posttranslational modification] 416344017022 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 416344017023 ATP binding site [chemical binding]; other site 416344017024 Mg2+ binding site [ion binding]; other site 416344017025 G-X-G motif; other site 416344017026 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 416344017027 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344017028 TM-ABC transporter signature motif; other site 416344017029 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416344017030 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 416344017031 TM-ABC transporter signature motif; other site 416344017032 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 416344017033 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416344017034 Walker A/P-loop; other site 416344017035 ATP binding site [chemical binding]; other site 416344017036 Q-loop/lid; other site 416344017037 ABC transporter signature motif; other site 416344017038 Walker B; other site 416344017039 D-loop; other site 416344017040 H-loop/switch region; other site 416344017041 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416344017042 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 416344017043 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 416344017044 putative ligand binding site [chemical binding]; other site 416344017045 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 416344017046 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 416344017047 active site 416344017048 DNA binding site [nucleotide binding] 416344017049 Int/Topo IB signature motif; other site 416344017050 catalytic residues [active] 416344017051 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 416344017052 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 416344017053 FeS/SAM binding site; other site 416344017054 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 416344017055 coenzyme PQQ biosynthesis protein PqqD; Region: PQQ_PqqD; TIGR03859 416344017056 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 416344017057 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 416344017058 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 416344017059 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 416344017060 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 416344017061 Walker A motif; other site 416344017062 ATP binding site [chemical binding]; other site 416344017063 Walker B motif; other site 416344017064 arginine finger; other site 416344017065 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416344017066 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 416344017067 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 416344017068 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 416344017069 N-terminal plug; other site 416344017070 ligand-binding site [chemical binding]; other site 416344017071 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 416344017072 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 416344017073 dimer interface [polypeptide binding]; other site 416344017074 Trp docking motif [polypeptide binding]; other site 416344017075 active site 416344017076 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 416344017077 substrate binding pocket [chemical binding]; other site 416344017078 membrane-bound complex binding site; other site 416344017079 hinge residues; other site 416344017080 Cytochrome c; Region: Cytochrom_C; pfam00034 416344017081 High potential iron-sulfur protein; Region: HIPIP; pfam01355 416344017082 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 416344017083 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 416344017084 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 416344017085 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416344017086 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 416344017087 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 416344017088 DNA binding residues [nucleotide binding] 416344017089 acetyl-CoA synthetase; Provisional; Region: PRK00174 416344017090 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 416344017091 active site 416344017092 CoA binding site [chemical binding]; other site 416344017093 acyl-activating enzyme (AAE) consensus motif; other site 416344017094 AMP binding site [chemical binding]; other site 416344017095 acetate binding site [chemical binding]; other site 416344017096 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416344017097 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 416344017098 trimer interface [polypeptide binding]; other site 416344017099 eyelet of channel; other site 416344017100 proline/glycine betaine transporter; Provisional; Region: PRK10642 416344017101 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 416344017102 putative substrate translocation pore; other site 416344017103 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 416344017104 DctM-like transporters; Region: DctM; pfam06808 416344017105 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 416344017106 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 416344017107 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 416344017108 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 416344017109 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]; Region: COG1107 416344017110 Transcriptional regulators [Transcription]; Region: GntR; COG1802 416344017111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344017112 DNA-binding site [nucleotide binding]; DNA binding site 416344017113 FCD domain; Region: FCD; pfam07729 416344017114 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 416344017115 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 416344017116 inhibitor site; inhibition site 416344017117 active site 416344017118 dimer interface [polypeptide binding]; other site 416344017119 catalytic residue [active] 416344017120 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416344017121 Uncharacterized conserved protein [Function unknown]; Region: COG3391 416344017122 Uncharacterized conserved protein [Function unknown]; Region: COG5476 416344017123 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 416344017124 MlrC C-terminus; Region: MlrC_C; pfam07171 416344017125 allantoate amidohydrolase; Reviewed; Region: PRK12893 416344017126 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 416344017127 active site 416344017128 metal binding site [ion binding]; metal-binding site 416344017129 dimer interface [polypeptide binding]; other site 416344017130 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 416344017131 TM-ABC transporter signature motif; other site 416344017132 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 416344017133 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 416344017134 putative ligand binding site [chemical binding]; other site 416344017135 Transcriptional regulators [Transcription]; Region: FadR; COG2186 416344017136 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416344017137 DNA-binding site [nucleotide binding]; DNA binding site 416344017138 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 416344017139 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 416344017140 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416344017141 NAD binding site [chemical binding]; other site 416344017142 catalytic residues [active] 416344017143 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 416344017144 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416344017145 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416344017146 benzoate transport; Region: 2A0115; TIGR00895 416344017147 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 416344017148 putative substrate translocation pore; other site 416344017149 H-NS histone family; Region: Histone_HNS; pfam00816 416344017150 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 416344017151 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 416344017152 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 416344017153 NADP binding site [chemical binding]; other site 416344017154 active site 416344017155 putative substrate binding site [chemical binding]; other site 416344017156 Predicted membrane protein [Function unknown]; Region: COG2259 416344017157 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 416344017158 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 416344017159 LysR family transcriptional regulator; Provisional; Region: PRK14997 416344017160 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344017161 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 416344017162 putative effector binding pocket; other site 416344017163 dimerization interface [polypeptide binding]; other site 416344017164 Pirin-related protein [General function prediction only]; Region: COG1741 416344017165 Pirin; Region: Pirin; pfam02678 416344017166 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 416344017167 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416344017168 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 416344017169 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 416344017170 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 416344017171 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416344017172 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 416344017173 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416344017174 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416344017175 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416344017176 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416344017177 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416344017178 Walker A/P-loop; other site 416344017179 ATP binding site [chemical binding]; other site 416344017180 Q-loop/lid; other site 416344017181 ABC transporter signature motif; other site 416344017182 Walker B; other site 416344017183 D-loop; other site 416344017184 H-loop/switch region; other site 416344017185 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 416344017186 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344017187 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 416344017188 dimerization interface [polypeptide binding]; other site 416344017189 EamA-like transporter family; Region: EamA; pfam00892 416344017190 EamA-like transporter family; Region: EamA; cl17759 416344017191 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 416344017192 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 416344017193 dimerization interface [polypeptide binding]; other site 416344017194 ligand binding site [chemical binding]; other site 416344017195 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 416344017196 FAD binding domain; Region: FAD_binding_4; pfam01565 416344017197 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 416344017198 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416344017199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416344017200 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 416344017201 dimerization interface [polypeptide binding]; other site 416344017202 substrate binding pocket [chemical binding]; other site 416344017203 YadA-like C-terminal region; Region: YadA; pfam03895 416344017204 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 416344017205 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 416344017206 putative active site [active] 416344017207 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 416344017208 H-NS histone family; Region: Histone_HNS; pfam00816 416344017209 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 416344017210 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 416344017211 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 416344017212 SprT homologues; Region: SprT; cl01182 416344017213 SprT-like family; Region: SprT-like; pfam10263 416344017214 Antirestriction protein; Region: Antirestrict; pfam03230 416344017215 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 416344017216 Neuroendocrine protein 7B2 precursor (Secretogranin V); Region: Secretogranin_V; pfam05281 416344017217 Initiator Replication protein; Region: Rep_3; pfam01051 416344017218 DNA topoisomerase III; Provisional; Region: PRK07726 416344017219 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 416344017220 active site 416344017221 putative interdomain interaction site [polypeptide binding]; other site 416344017222 putative metal-binding site [ion binding]; other site 416344017223 putative nucleotide binding site [chemical binding]; other site 416344017224 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; cl11986 416344017225 domain I; other site 416344017226 DNA binding groove [nucleotide binding] 416344017227 phosphate binding site [ion binding]; other site 416344017228 domain II; other site 416344017229 domain III; other site 416344017230 nucleotide binding site [chemical binding]; other site 416344017231 catalytic site [active] 416344017232 domain IV; other site 416344017233 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 416344017234 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 416344017235 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416344017236 catalytic residue [active] 416344017237 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 416344017238 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 416344017239 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 416344017240 Type IV secretion system proteins; Region: T4SS; pfam07996 416344017241 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 416344017242 VirB8 protein; Region: VirB8; pfam04335 416344017243 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 416344017244 VirB7 interaction site; other site 416344017245 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 416344017246 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 416344017247 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 416344017248 Walker A motif; other site 416344017249 ATP binding site [chemical binding]; other site 416344017250 Walker B motif; other site 416344017251 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 416344017252 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 416344017253 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 416344017254 Walker A motif; other site 416344017255 ATP binding site [chemical binding]; other site 416344017256 Walker B motif; other site 416344017257 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 416344017258 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 416344017259 dimer interface [polypeptide binding]; other site 416344017260 ssDNA binding site [nucleotide binding]; other site 416344017261 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416344017262 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 416344017263 PLD-like domain; Region: PLDc_2; pfam13091 416344017264 putative active site [active] 416344017265 catalytic site [active]