-- dump date 20140619_015649 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1249661000001 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1249661000002 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1249661000003 dimer interface [polypeptide binding]; other site 1249661000004 acyl-activating enzyme (AAE) consensus motif; other site 1249661000005 putative active site [active] 1249661000006 AMP binding site [chemical binding]; other site 1249661000007 putative CoA binding site [chemical binding]; other site 1249661000008 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1249661000009 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661000010 active site 1249661000011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661000012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661000013 citrate-proton symporter; Provisional; Region: PRK15075 1249661000014 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661000015 putative substrate translocation pore; other site 1249661000016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661000017 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1249661000018 Coenzyme A binding pocket [chemical binding]; other site 1249661000019 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1249661000020 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661000021 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 1249661000022 dimer interface [polypeptide binding]; other site 1249661000023 conserved gate region; other site 1249661000024 putative PBP binding loops; other site 1249661000025 ABC-ATPase subunit interface; other site 1249661000026 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661000027 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 1249661000028 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1249661000029 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661000030 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1249661000031 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1249661000032 putative active site; other site 1249661000033 catalytic triad [active] 1249661000034 putative dimer interface [polypeptide binding]; other site 1249661000035 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1249661000036 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 1249661000037 active site 1249661000038 Zn binding site [ion binding]; other site 1249661000039 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1249661000040 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661000041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661000042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661000043 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 1249661000044 putative effector binding pocket; other site 1249661000045 dimerization interface [polypeptide binding]; other site 1249661000046 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1249661000047 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661000048 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1249661000049 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 1249661000050 DNA binding residues [nucleotide binding] 1249661000051 glutamate--cysteine ligase; Provisional; Region: PRK02107 1249661000052 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1249661000053 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1249661000054 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1249661000055 minor groove reading motif; other site 1249661000056 helix-hairpin-helix signature motif; other site 1249661000057 substrate binding pocket [chemical binding]; other site 1249661000058 active site 1249661000059 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1249661000060 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1249661000061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661000062 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661000063 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1249661000064 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 1249661000065 DNA binding site [nucleotide binding] 1249661000066 active site 1249661000067 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 1249661000068 dimer interface [polypeptide binding]; other site 1249661000069 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661000070 metal binding site [ion binding]; metal-binding site 1249661000071 YaeQ protein; Region: YaeQ; pfam07152 1249661000072 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 1249661000073 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1249661000074 transport protein sec23; Provisional; Region: PLN00162 1249661000075 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 1249661000076 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1249661000077 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1249661000078 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1249661000079 G1 box; other site 1249661000080 GTP/Mg2+ binding site [chemical binding]; other site 1249661000081 Switch I region; other site 1249661000082 G2 box; other site 1249661000083 Switch II region; other site 1249661000084 G3 box; other site 1249661000085 G4 box; other site 1249661000086 G5 box; other site 1249661000087 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1249661000088 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 1249661000089 sequence-specific DNA binding site [nucleotide binding]; other site 1249661000090 salt bridge; other site 1249661000091 membrane protein insertase; Provisional; Region: PRK01318 1249661000092 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1249661000093 Ribonuclease P; Region: Ribonuclease_P; cl00457 1249661000094 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1249661000095 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1249661000096 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1249661000097 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 1249661000098 Walker A motif; other site 1249661000099 ATP binding site [chemical binding]; other site 1249661000100 Walker B motif; other site 1249661000101 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 1249661000102 arginine finger; other site 1249661000103 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 1249661000104 DnaA box-binding interface [nucleotide binding]; other site 1249661000105 DNA polymerase III subunit beta; Validated; Region: PRK05643 1249661000106 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 1249661000107 putative DNA binding surface [nucleotide binding]; other site 1249661000108 dimer interface [polypeptide binding]; other site 1249661000109 beta-clamp/clamp loader binding surface; other site 1249661000110 beta-clamp/translesion DNA polymerase binding surface; other site 1249661000111 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1249661000112 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 1249661000113 ATP binding site [chemical binding]; other site 1249661000114 Mg2+ binding site [ion binding]; other site 1249661000115 G-X-G motif; other site 1249661000116 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 1249661000117 anchoring element; other site 1249661000118 dimer interface [polypeptide binding]; other site 1249661000119 ATP binding site [chemical binding]; other site 1249661000120 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 1249661000121 active site 1249661000122 putative metal-binding site [ion binding]; other site 1249661000123 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1249661000124 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 1249661000125 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 1249661000126 Protein of unknown function DUF45; Region: DUF45; pfam01863 1249661000127 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1249661000128 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1249661000129 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 1249661000130 ATP binding site [chemical binding]; other site 1249661000131 putative Mg++ binding site [ion binding]; other site 1249661000132 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249661000133 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249661000134 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249661000135 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1249661000136 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1249661000137 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1249661000138 Integrase core domain; Region: rve; pfam00665 1249661000139 Integrase core domain; Region: rve_3; cl15866 1249661000140 AAA domain; Region: AAA_22; pfam13401 1249661000141 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 1249661000142 Walker A motif; other site 1249661000143 ATP binding site [chemical binding]; other site 1249661000144 Walker B motif; other site 1249661000145 arginine finger; other site 1249661000146 TniQ; Region: TniQ; pfam06527 1249661000147 ParB-like nuclease domain; Region: ParB; smart00470 1249661000148 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1249661000149 RepB plasmid partitioning protein; Region: RepB; pfam07506 1249661000150 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1249661000151 ParB-like nuclease domain; Region: ParB; smart00470 1249661000152 Recombinase; Region: Recombinase; pfam07508 1249661000153 Mrr N-terminal domain; Region: Mrr_N; pfam14338 1249661000154 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 1249661000155 Restriction endonuclease; Region: Mrr_cat; pfam04471 1249661000156 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1249661000157 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1249661000158 putative heme binding pocket [chemical binding]; other site 1249661000159 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1249661000160 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661000161 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 1249661000162 DNA binding residues [nucleotide binding] 1249661000163 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1249661000164 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1249661000165 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661000166 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661000167 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1249661000168 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 1249661000169 substrate binding site [chemical binding]; other site 1249661000170 oxyanion hole (OAH) forming residues; other site 1249661000171 trimer interface [polypeptide binding]; other site 1249661000172 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1249661000173 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1249661000174 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1249661000175 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 1249661000176 dimer interface [polypeptide binding]; other site 1249661000177 active site 1249661000178 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1249661000179 conserved cys residue [active] 1249661000180 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661000181 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1249661000182 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 1249661000183 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1249661000184 putative di-iron ligands [ion binding]; other site 1249661000185 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 1249661000186 Predicted membrane protein [Function unknown]; Region: COG4709 1249661000187 Predicted transcriptional regulators [Transcription]; Region: COG1695 1249661000188 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1249661000189 choline dehydrogenase; Validated; Region: PRK02106 1249661000190 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1249661000191 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661000192 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1249661000193 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1249661000194 classical (c) SDRs; Region: SDR_c; cd05233 1249661000195 NAD(P) binding site [chemical binding]; other site 1249661000196 active site 1249661000197 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 1249661000198 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1249661000199 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1249661000200 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249661000201 NAD(P) binding site [chemical binding]; other site 1249661000202 catalytic residues [active] 1249661000203 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1249661000204 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_7; cd06341 1249661000205 putative ligand binding site [chemical binding]; other site 1249661000206 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 1249661000207 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661000208 TM-ABC transporter signature motif; other site 1249661000209 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1249661000210 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 1249661000211 TM-ABC transporter signature motif; other site 1249661000212 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1249661000213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661000214 Walker A/P-loop; other site 1249661000215 ATP binding site [chemical binding]; other site 1249661000216 Q-loop/lid; other site 1249661000217 ABC transporter signature motif; other site 1249661000218 Walker B; other site 1249661000219 D-loop; other site 1249661000220 H-loop/switch region; other site 1249661000221 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1249661000222 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1249661000223 Walker A/P-loop; other site 1249661000224 ATP binding site [chemical binding]; other site 1249661000225 Q-loop/lid; other site 1249661000226 ABC transporter signature motif; other site 1249661000227 Walker B; other site 1249661000228 D-loop; other site 1249661000229 H-loop/switch region; other site 1249661000230 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661000231 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661000232 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661000233 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 1249661000234 trimer interface [polypeptide binding]; other site 1249661000235 eyelet of channel; other site 1249661000236 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1249661000237 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 1249661000238 ATP binding site [chemical binding]; other site 1249661000239 putative Mg++ binding site [ion binding]; other site 1249661000240 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1249661000241 DNA methylase; Region: N6_N4_Mtase; pfam01555 1249661000242 DNA methylase; Region: N6_N4_Mtase; cl17433 1249661000243 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661000244 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 1249661000245 trimer interface [polypeptide binding]; other site 1249661000246 eyelet of channel; other site 1249661000247 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1249661000248 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 1249661000249 active site 1249661000250 phosphorylation site [posttranslational modification] 1249661000251 intermolecular recognition site; other site 1249661000252 dimerization interface [polypeptide binding]; other site 1249661000253 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 1249661000254 DNA binding site [nucleotide binding] 1249661000255 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1249661000256 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661000257 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 1249661000258 dimer interface [polypeptide binding]; other site 1249661000259 phosphorylation site [posttranslational modification] 1249661000260 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 1249661000261 ATP binding site [chemical binding]; other site 1249661000262 Mg2+ binding site [ion binding]; other site 1249661000263 G-X-G motif; other site 1249661000264 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1249661000265 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 1249661000266 dimer interface [polypeptide binding]; other site 1249661000267 conserved gate region; other site 1249661000268 putative PBP binding loops; other site 1249661000269 ABC-ATPase subunit interface; other site 1249661000270 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1249661000271 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1249661000272 Walker A/P-loop; other site 1249661000273 ATP binding site [chemical binding]; other site 1249661000274 Q-loop/lid; other site 1249661000275 ABC transporter signature motif; other site 1249661000276 Walker B; other site 1249661000277 D-loop; other site 1249661000278 H-loop/switch region; other site 1249661000279 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1249661000280 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 1249661000281 membrane-bound complex binding site; other site 1249661000282 hinge residues; other site 1249661000283 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1249661000284 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249661000285 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 1249661000286 S-adenosylmethionine binding site [chemical binding]; other site 1249661000287 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1249661000288 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1249661000289 DNA binding residues [nucleotide binding] 1249661000290 putative dimer interface [polypeptide binding]; other site 1249661000291 putative metal binding residues [ion binding]; other site 1249661000292 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1249661000293 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1249661000294 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1249661000295 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1249661000296 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1249661000297 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1249661000298 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1249661000299 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1249661000300 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 1249661000301 LrgB-like family; Region: LrgB; cl00596 1249661000302 LrgA family; Region: LrgA; pfam03788 1249661000303 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661000304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661000305 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1249661000306 putative dimerization interface [polypeptide binding]; other site 1249661000307 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1249661000308 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661000309 putative substrate translocation pore; other site 1249661000310 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661000311 MarR family; Region: MarR_2; cl17246 1249661000312 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1249661000313 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661000314 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1249661000315 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1249661000316 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1249661000317 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1249661000318 GspL periplasmic domain; Region: GspL_C; pfam12693 1249661000319 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1249661000320 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1249661000321 type II secretion system protein I; Region: gspI; TIGR01707 1249661000322 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1249661000323 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1249661000324 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1249661000325 Type II transport protein GspH; Region: GspH; pfam12019 1249661000326 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1249661000327 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1249661000328 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1249661000329 type II secretion system protein F; Region: GspF; TIGR02120 1249661000330 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661000331 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661000332 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1249661000333 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1249661000334 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 1249661000335 Walker A motif; other site 1249661000336 ATP binding site [chemical binding]; other site 1249661000337 Walker B motif; other site 1249661000338 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1249661000339 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661000340 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661000341 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661000342 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1249661000343 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661000344 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1249661000345 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 1249661000346 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249661000347 catalytic residue [active] 1249661000348 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1249661000349 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1249661000350 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1249661000351 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 1249661000352 IHF dimer interface [polypeptide binding]; other site 1249661000353 IHF - DNA interface [nucleotide binding]; other site 1249661000354 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1249661000355 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1249661000356 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1249661000357 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1249661000358 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1249661000359 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1249661000360 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 1249661000361 putative DNA binding site [nucleotide binding]; other site 1249661000362 putative Zn2+ binding site [ion binding]; other site 1249661000363 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1249661000364 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1249661000365 catalytic triad [active] 1249661000366 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 1249661000367 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 1249661000368 phosphate binding site [ion binding]; other site 1249661000369 Proteins containing SET domain [General function prediction only]; Region: COG2940 1249661000370 SET domain; Region: SET; pfam00856 1249661000371 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1249661000372 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661000373 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 1249661000374 dimer interface [polypeptide binding]; other site 1249661000375 phosphorylation site [posttranslational modification] 1249661000376 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 1249661000377 ATP binding site [chemical binding]; other site 1249661000378 Mg2+ binding site [ion binding]; other site 1249661000379 G-X-G motif; other site 1249661000380 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661000381 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 1249661000382 active site 1249661000383 phosphorylation site [posttranslational modification] 1249661000384 intermolecular recognition site; other site 1249661000385 dimerization interface [polypeptide binding]; other site 1249661000386 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 1249661000387 DNA binding site [nucleotide binding] 1249661000388 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 1249661000389 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 1249661000390 aromatic arch; other site 1249661000391 DCoH dimer interaction site [polypeptide binding]; other site 1249661000392 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1249661000393 DCoH tetramer interaction site [polypeptide binding]; other site 1249661000394 substrate binding site [chemical binding]; other site 1249661000395 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 1249661000396 cofactor binding site; other site 1249661000397 metal binding site [ion binding]; metal-binding site 1249661000398 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661000399 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1249661000400 putative DNA binding site [nucleotide binding]; other site 1249661000401 putative Zn2+ binding site [ion binding]; other site 1249661000402 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661000403 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 1249661000404 putative active site [active] 1249661000405 putative metal binding residues [ion binding]; other site 1249661000406 signature motif; other site 1249661000407 putative triphosphate binding site [ion binding]; other site 1249661000408 dimer interface [polypeptide binding]; other site 1249661000409 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661000410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661000411 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 1249661000412 dimerization interface [polypeptide binding]; other site 1249661000413 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1249661000414 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1249661000415 tetrameric interface [polypeptide binding]; other site 1249661000416 NAD binding site [chemical binding]; other site 1249661000417 catalytic residues [active] 1249661000418 choline dehydrogenase; Validated; Region: PRK02106 1249661000419 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1249661000420 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1249661000421 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1249661000422 Walker A/P-loop; other site 1249661000423 ATP binding site [chemical binding]; other site 1249661000424 Q-loop/lid; other site 1249661000425 ABC transporter signature motif; other site 1249661000426 Walker B; other site 1249661000427 D-loop; other site 1249661000428 H-loop/switch region; other site 1249661000429 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1249661000430 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1249661000431 Walker A/P-loop; other site 1249661000432 ATP binding site [chemical binding]; other site 1249661000433 Q-loop/lid; other site 1249661000434 ABC transporter signature motif; other site 1249661000435 Walker B; other site 1249661000436 D-loop; other site 1249661000437 H-loop/switch region; other site 1249661000438 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1249661000439 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 1249661000440 putative ligand binding site [chemical binding]; other site 1249661000441 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661000442 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 1249661000443 TM-ABC transporter signature motif; other site 1249661000444 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1249661000445 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 1249661000446 TM-ABC transporter signature motif; other site 1249661000447 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249661000448 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1249661000449 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 1249661000450 putative ligand binding site [chemical binding]; other site 1249661000451 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 1249661000452 TM-ABC transporter signature motif; other site 1249661000453 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1249661000454 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 1249661000455 TM-ABC transporter signature motif; other site 1249661000456 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1249661000457 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1249661000458 Walker A/P-loop; other site 1249661000459 ATP binding site [chemical binding]; other site 1249661000460 Q-loop/lid; other site 1249661000461 ABC transporter signature motif; other site 1249661000462 Walker B; other site 1249661000463 D-loop; other site 1249661000464 H-loop/switch region; other site 1249661000465 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1249661000466 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1249661000467 Walker A/P-loop; other site 1249661000468 ATP binding site [chemical binding]; other site 1249661000469 Q-loop/lid; other site 1249661000470 ABC transporter signature motif; other site 1249661000471 Walker B; other site 1249661000472 D-loop; other site 1249661000473 H-loop/switch region; other site 1249661000474 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1249661000475 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1249661000476 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1249661000477 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1249661000478 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1249661000479 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 1249661000480 S-adenosylmethionine binding site [chemical binding]; other site 1249661000481 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1249661000482 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 1249661000483 P-loop; other site 1249661000484 Magnesium ion binding site [ion binding]; other site 1249661000485 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 1249661000486 Magnesium ion binding site [ion binding]; other site 1249661000487 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1249661000488 ParB-like nuclease domain; Region: ParBc; pfam02195 1249661000489 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 1249661000490 transmembrane helices; other site 1249661000491 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1249661000492 ATP synthase I chain; Region: ATP_synt_I; pfam03899 1249661000493 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1249661000494 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1249661000495 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1249661000496 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1249661000497 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1249661000498 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1249661000499 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1249661000500 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1249661000501 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1249661000502 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 1249661000503 beta subunit interaction interface [polypeptide binding]; other site 1249661000504 Walker A motif; other site 1249661000505 ATP binding site [chemical binding]; other site 1249661000506 Walker B motif; other site 1249661000507 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1249661000508 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1249661000509 core domain interface [polypeptide binding]; other site 1249661000510 delta subunit interface [polypeptide binding]; other site 1249661000511 epsilon subunit interface [polypeptide binding]; other site 1249661000512 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1249661000513 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1249661000514 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 1249661000515 alpha subunit interaction interface [polypeptide binding]; other site 1249661000516 Walker A motif; other site 1249661000517 ATP binding site [chemical binding]; other site 1249661000518 Walker B motif; other site 1249661000519 inhibitor binding site; inhibition site 1249661000520 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1249661000521 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1249661000522 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1249661000523 gamma subunit interface [polypeptide binding]; other site 1249661000524 epsilon subunit interface [polypeptide binding]; other site 1249661000525 LBP interface [polypeptide binding]; other site 1249661000526 AMP-binding domain protein; Validated; Region: PRK08315 1249661000527 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661000528 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1249661000529 acyl-activating enzyme (AAE) consensus motif; other site 1249661000530 putative AMP binding site [chemical binding]; other site 1249661000531 putative active site [active] 1249661000532 putative CoA binding site [chemical binding]; other site 1249661000533 CoA binding domain; Region: CoA_binding; cl17356 1249661000534 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 1249661000535 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249661000536 substrate binding pocket [chemical binding]; other site 1249661000537 membrane-bound complex binding site; other site 1249661000538 hinge residues; other site 1249661000539 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1249661000540 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 1249661000541 substrate binding site [chemical binding]; other site 1249661000542 active site 1249661000543 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1249661000544 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 1249661000545 ATP binding site [chemical binding]; other site 1249661000546 putative Mg++ binding site [ion binding]; other site 1249661000547 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1249661000548 ATP-binding site [chemical binding]; other site 1249661000549 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661000550 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1249661000551 Predicted transcriptional regulator [Transcription]; Region: COG3905 1249661000552 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1249661000553 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1249661000554 Glutamate binding site [chemical binding]; other site 1249661000555 NAD binding site [chemical binding]; other site 1249661000556 catalytic residues [active] 1249661000557 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1249661000558 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1249661000559 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 1249661000560 dimerization interface [polypeptide binding]; other site 1249661000561 ligand binding site [chemical binding]; other site 1249661000562 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1249661000563 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661000564 acyl-activating enzyme (AAE) consensus motif; other site 1249661000565 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1249661000566 acyl-activating enzyme (AAE) consensus motif; other site 1249661000567 putative AMP binding site [chemical binding]; other site 1249661000568 putative active site [active] 1249661000569 putative CoA binding site [chemical binding]; other site 1249661000570 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1249661000571 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661000572 active site 1249661000573 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661000574 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661000575 putative aminotransferase; Provisional; Region: PRK12414 1249661000576 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 1249661000577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661000578 homodimer interface [polypeptide binding]; other site 1249661000579 catalytic residue [active] 1249661000580 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249661000581 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 1249661000582 substrate binding pocket [chemical binding]; other site 1249661000583 membrane-bound complex binding site; other site 1249661000584 hinge residues; other site 1249661000585 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1249661000586 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661000587 Predicted transcriptional regulators [Transcription]; Region: COG1695 1249661000588 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1249661000589 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1249661000590 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1249661000591 DNA binding residues [nucleotide binding] 1249661000592 dimer interface [polypeptide binding]; other site 1249661000593 putative metal binding site [ion binding]; other site 1249661000594 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1249661000595 Heavy-metal-associated domain; Region: HMA; pfam00403 1249661000596 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1249661000597 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1249661000598 Double zinc ribbon; Region: DZR; pfam12773 1249661000599 Conserved TM helix; Region: TM_helix; pfam05552 1249661000600 Conserved TM helix; Region: TM_helix; pfam05552 1249661000601 Conserved TM helix; Region: TM_helix; pfam05552 1249661000602 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 1249661000603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661000604 DNA-binding site [nucleotide binding]; DNA binding site 1249661000605 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 1249661000606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661000607 homodimer interface [polypeptide binding]; other site 1249661000608 catalytic residue [active] 1249661000609 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661000610 Domain of unknown function (DUF4188); Region: DUF4188; pfam13826 1249661000611 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1249661000612 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1249661000613 ethanolamine permease; Region: 2A0305; TIGR00908 1249661000614 hypothetical protein; Provisional; Region: PHA02764 1249661000615 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1249661000616 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1249661000617 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1249661000618 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1249661000619 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1249661000620 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 1249661000621 DNA binding site [nucleotide binding] 1249661000622 active site 1249661000623 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661000624 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661000625 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 1249661000626 putative effector binding pocket; other site 1249661000627 putative dimerization interface [polypeptide binding]; other site 1249661000628 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661000629 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1249661000630 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249661000631 NAD(P) binding site [chemical binding]; other site 1249661000632 catalytic residues [active] 1249661000633 Helix-turn-helix domain; Region: HTH_18; pfam12833 1249661000634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661000635 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 1249661000636 thiamine pyrophosphate protein; Validated; Region: PRK08199 1249661000637 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249661000638 PYR/PP interface [polypeptide binding]; other site 1249661000639 dimer interface [polypeptide binding]; other site 1249661000640 TPP binding site [chemical binding]; other site 1249661000641 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249661000642 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 1249661000643 TPP-binding site [chemical binding]; other site 1249661000644 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1249661000645 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1249661000646 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1249661000647 Alginate lyase; Region: Alginate_lyase; pfam05426 1249661000648 glycine dehydrogenase; Provisional; Region: PRK05367 1249661000649 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 1249661000650 tetramer interface [polypeptide binding]; other site 1249661000651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661000652 catalytic residue [active] 1249661000653 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 1249661000654 tetramer interface [polypeptide binding]; other site 1249661000655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661000656 catalytic residue [active] 1249661000657 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 1249661000658 lipoyl attachment site [posttranslational modification]; other site 1249661000659 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1249661000660 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1249661000661 putative oxidoreductase; Provisional; Region: PRK11579 1249661000662 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249661000663 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1249661000664 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 1249661000665 active site 1249661000666 catalytic triad [active] 1249661000667 oxyanion hole [active] 1249661000668 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1249661000669 Part of AAA domain; Region: AAA_19; pfam13245 1249661000670 Family description; Region: UvrD_C_2; pfam13538 1249661000671 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1249661000672 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661000673 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1249661000674 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1249661000675 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661000676 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661000677 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661000678 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661000679 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1249661000680 baseplate assembly protein; Provisional; Region: J; PHA02568 1249661000681 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1249661000682 portal vertex protein; Provisional; Region: Q; PHA02536 1249661000683 Phage portal protein; Region: Phage_portal; pfam04860 1249661000684 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1249661000685 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1249661000686 PAAR motif; Region: PAAR_motif; pfam05488 1249661000687 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 1249661000688 non-specific DNA binding site [nucleotide binding]; other site 1249661000689 salt bridge; other site 1249661000690 sequence-specific DNA binding site [nucleotide binding]; other site 1249661000691 PAAR motif; Region: PAAR_motif; cl15808 1249661000692 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1249661000693 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1249661000694 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1249661000695 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661000696 Berberine and berberine like; Region: BBE; pfam08031 1249661000697 Cache domain; Region: Cache_1; pfam02743 1249661000698 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 1249661000699 dimerization interface [polypeptide binding]; other site 1249661000700 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1249661000701 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661000702 dimer interface [polypeptide binding]; other site 1249661000703 putative CheW interface [polypeptide binding]; other site 1249661000704 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1249661000705 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 1249661000706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 1249661000707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 1249661000708 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 1249661000709 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 1249661000710 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661000711 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1249661000712 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1249661000713 flagellin; Reviewed; Region: PRK08869 1249661000714 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1249661000715 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1249661000716 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1249661000717 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1249661000718 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1249661000719 putative hydrolase; Provisional; Region: PRK10976 1249661000720 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 1249661000721 active site 1249661000722 motif I; other site 1249661000723 motif II; other site 1249661000724 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 1249661000725 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 1249661000726 amphipathic channel; other site 1249661000727 Asn-Pro-Ala signature motifs; other site 1249661000728 H-NS histone family; Region: Histone_HNS; pfam00816 1249661000729 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661000730 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 1249661000731 putative ADP-binding pocket [chemical binding]; other site 1249661000732 transcriptional activator FlhD; Provisional; Region: PRK02909 1249661000733 transcriptional activator FlhC; Provisional; Region: PRK12722 1249661000734 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1249661000735 flagellar motor protein MotA; Validated; Region: PRK09110 1249661000736 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1249661000737 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1249661000738 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661000739 ligand binding site [chemical binding]; other site 1249661000740 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661000741 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 1249661000742 active site 1249661000743 phosphorylation site [posttranslational modification] 1249661000744 intermolecular recognition site; other site 1249661000745 dimerization interface [polypeptide binding]; other site 1249661000746 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 1249661000747 putative binding surface; other site 1249661000748 active site 1249661000749 CheY binding; Region: CheY-binding; pfam09078 1249661000750 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1249661000751 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 1249661000752 ATP binding site [chemical binding]; other site 1249661000753 Mg2+ binding site [ion binding]; other site 1249661000754 G-X-G motif; other site 1249661000755 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 1249661000756 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1249661000757 putative CheA interaction surface; other site 1249661000758 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1249661000759 dimer interface [polypeptide binding]; other site 1249661000760 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 1249661000761 dimerization interface [polypeptide binding]; other site 1249661000762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661000763 dimer interface [polypeptide binding]; other site 1249661000764 putative CheW interface [polypeptide binding]; other site 1249661000765 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1249661000766 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1249661000767 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 1249661000768 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 1249661000769 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1249661000770 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 1249661000771 active site 1249661000772 phosphorylation site [posttranslational modification] 1249661000773 intermolecular recognition site; other site 1249661000774 dimerization interface [polypeptide binding]; other site 1249661000775 CheB methylesterase; Region: CheB_methylest; pfam01339 1249661000776 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1249661000777 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 1249661000778 active site 1249661000779 phosphorylation site [posttranslational modification] 1249661000780 intermolecular recognition site; other site 1249661000781 dimerization interface [polypeptide binding]; other site 1249661000782 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1249661000783 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 1249661000784 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 1249661000785 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1249661000786 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1249661000787 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1249661000788 FHIPEP family; Region: FHIPEP; pfam00771 1249661000789 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 1249661000790 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 1249661000791 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 1249661000792 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1249661000793 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661000794 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1249661000795 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 1249661000796 DNA binding residues [nucleotide binding] 1249661000797 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1249661000798 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1249661000799 homotetramer interface [polypeptide binding]; other site 1249661000800 ligand binding site [chemical binding]; other site 1249661000801 catalytic site [active] 1249661000802 NAD binding site [chemical binding]; other site 1249661000803 Predicted membrane protein [Function unknown]; Region: COG1950 1249661000804 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 1249661000805 FAD binding site [chemical binding]; other site 1249661000806 amidase; Provisional; Region: PRK07869 1249661000807 Amidase; Region: Amidase; cl11426 1249661000808 Dienelactone hydrolase family; Region: DLH; pfam01738 1249661000809 Nitronate monooxygenase; Region: NMO; pfam03060 1249661000810 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 1249661000811 FMN binding site [chemical binding]; other site 1249661000812 substrate binding site [chemical binding]; other site 1249661000813 putative catalytic residue [active] 1249661000814 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1249661000815 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 1249661000816 dimerization interface [polypeptide binding]; other site 1249661000817 ligand binding site [chemical binding]; other site 1249661000818 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1249661000819 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1249661000820 H-NS histone family; Region: Histone_HNS; pfam00816 1249661000821 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1249661000822 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1249661000823 Cation efflux family; Region: Cation_efflux; pfam01545 1249661000824 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661000825 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 1249661000826 putative DNA binding site [nucleotide binding]; other site 1249661000827 putative Zn2+ binding site [ion binding]; other site 1249661000828 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661000829 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1249661000830 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1249661000831 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1249661000832 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1249661000833 Predicted methyltransferases [General function prediction only]; Region: COG0313 1249661000834 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1249661000835 putative SAM binding site [chemical binding]; other site 1249661000836 putative homodimer interface [polypeptide binding]; other site 1249661000837 hypothetical protein; Provisional; Region: PRK14673 1249661000838 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 1249661000839 dimer interface [polypeptide binding]; other site 1249661000840 active site 1249661000841 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1249661000842 BON domain; Region: BON; pfam04972 1249661000843 BON domain; Region: BON; pfam04972 1249661000844 Cytochrome c; Region: Cytochrom_C; cl11414 1249661000845 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 1249661000846 active site 1249661000847 Int/Topo IB signature motif; other site 1249661000848 DNA binding site [nucleotide binding] 1249661000849 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1249661000850 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1249661000851 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 1249661000852 ATP binding site [chemical binding]; other site 1249661000853 putative Mg++ binding site [ion binding]; other site 1249661000854 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249661000855 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249661000856 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249661000857 AAA domain; Region: AAA_13; pfam13166 1249661000858 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1249661000859 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1249661000860 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 1249661000861 S-adenosylmethionine binding site [chemical binding]; other site 1249661000862 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1249661000863 Spore germination protein; Region: Spore_permease; cl17796 1249661000864 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1249661000865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661000866 ABC transporter signature motif; other site 1249661000867 Walker B; other site 1249661000868 D-loop; other site 1249661000869 H-loop/switch region; other site 1249661000870 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 1249661000871 putative PBP binding regions; other site 1249661000872 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; cl17260 1249661000873 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 1249661000874 Uncharacterized conserved protein [Function unknown]; Region: COG1656 1249661000875 Protein of unknown function DUF82; Region: DUF82; pfam01927 1249661000876 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1249661000877 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249661000878 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661000879 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661000880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661000881 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 1249661000882 dimerization interface [polypeptide binding]; other site 1249661000883 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1249661000884 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1249661000885 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1249661000886 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1249661000887 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1249661000888 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1249661000889 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1249661000890 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1249661000891 substrate binding site [chemical binding]; other site 1249661000892 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661000893 active site 1249661000894 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1249661000895 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1249661000896 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1249661000897 putative NAD(P) binding site [chemical binding]; other site 1249661000898 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1249661000899 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1249661000900 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 1249661000901 dimer interface [polypeptide binding]; other site 1249661000902 PYR/PP interface [polypeptide binding]; other site 1249661000903 TPP binding site [chemical binding]; other site 1249661000904 substrate binding site [chemical binding]; other site 1249661000905 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 1249661000906 TPP-binding site; other site 1249661000907 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1249661000908 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1249661000909 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1249661000910 dimer interface [polypeptide binding]; other site 1249661000911 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1249661000912 active site 1249661000913 Fe binding site [ion binding]; other site 1249661000914 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661000915 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 1249661000916 putative DNA binding site [nucleotide binding]; other site 1249661000917 putative Zn2+ binding site [ion binding]; other site 1249661000918 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661000919 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1249661000920 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661000921 Coenzyme A binding pocket [chemical binding]; other site 1249661000922 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661000923 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661000924 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1249661000925 Protein of unknown function; Region: DUF3658; pfam12395 1249661000926 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1249661000927 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 1249661000928 FAD binding pocket [chemical binding]; other site 1249661000929 FAD binding motif [chemical binding]; other site 1249661000930 phosphate binding motif [ion binding]; other site 1249661000931 beta-alpha-beta structure motif; other site 1249661000932 NAD(p) ribose binding residues [chemical binding]; other site 1249661000933 NAD binding pocket [chemical binding]; other site 1249661000934 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1249661000935 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 1249661000936 catalytic loop [active] 1249661000937 iron binding site [ion binding]; other site 1249661000938 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1249661000939 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1249661000940 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1249661000941 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1249661000942 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1249661000943 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1249661000944 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 1249661000945 active site 1249661000946 catalytic triad [active] 1249661000947 oxyanion hole [active] 1249661000948 elongation factor Tu; Reviewed; Region: PRK00049 1249661000949 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1249661000950 G1 box; other site 1249661000951 GEF interaction site [polypeptide binding]; other site 1249661000952 GTP/Mg2+ binding site [chemical binding]; other site 1249661000953 Switch I region; other site 1249661000954 G2 box; other site 1249661000955 G3 box; other site 1249661000956 Switch II region; other site 1249661000957 G4 box; other site 1249661000958 G5 box; other site 1249661000959 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 1249661000960 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 1249661000961 Antibiotic Binding Site [chemical binding]; other site 1249661000962 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1249661000963 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1249661000964 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1249661000965 putative homodimer interface [polypeptide binding]; other site 1249661000966 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1249661000967 heterodimer interface [polypeptide binding]; other site 1249661000968 homodimer interface [polypeptide binding]; other site 1249661000969 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1249661000970 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 1249661000971 23S rRNA interface [nucleotide binding]; other site 1249661000972 L7/L12 interface [polypeptide binding]; other site 1249661000973 putative thiostrepton binding site; other site 1249661000974 L25 interface [polypeptide binding]; other site 1249661000975 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 1249661000976 mRNA/rRNA interface [nucleotide binding]; other site 1249661000977 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 1249661000978 23S rRNA interface [nucleotide binding]; other site 1249661000979 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1249661000980 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 1249661000981 peripheral dimer interface [polypeptide binding]; other site 1249661000982 core dimer interface [polypeptide binding]; other site 1249661000983 L10 interface [polypeptide binding]; other site 1249661000984 L11 interface [polypeptide binding]; other site 1249661000985 putative EF-Tu interaction site [polypeptide binding]; other site 1249661000986 putative EF-G interaction site [polypeptide binding]; other site 1249661000987 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1249661000988 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 1249661000989 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1249661000990 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 1249661000991 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1249661000992 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 1249661000993 RPB3 interaction site [polypeptide binding]; other site 1249661000994 RPB1 interaction site [polypeptide binding]; other site 1249661000995 RPB11 interaction site [polypeptide binding]; other site 1249661000996 RPB10 interaction site [polypeptide binding]; other site 1249661000997 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1249661000998 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1249661000999 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1249661001000 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1249661001001 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1249661001002 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1249661001003 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1249661001004 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1249661001005 DNA binding site [nucleotide binding] 1249661001006 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1249661001007 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1249661001008 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 1249661001009 ATP binding site [chemical binding]; other site 1249661001010 putative Mg++ binding site [ion binding]; other site 1249661001011 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 1249661001012 nucleotide binding region [chemical binding]; other site 1249661001013 ATP-binding site [chemical binding]; other site 1249661001014 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1249661001015 HRDC domain; Region: HRDC; pfam00570 1249661001016 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 1249661001017 S17 interaction site [polypeptide binding]; other site 1249661001018 S8 interaction site; other site 1249661001019 16S rRNA interaction site [nucleotide binding]; other site 1249661001020 streptomycin interaction site [chemical binding]; other site 1249661001021 23S rRNA interaction site [nucleotide binding]; other site 1249661001022 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1249661001023 30S ribosomal protein S7; Validated; Region: PRK05302 1249661001024 elongation factor G; Reviewed; Region: PRK00007 1249661001025 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1249661001026 G1 box; other site 1249661001027 putative GEF interaction site [polypeptide binding]; other site 1249661001028 GTP/Mg2+ binding site [chemical binding]; other site 1249661001029 Switch I region; other site 1249661001030 G2 box; other site 1249661001031 G3 box; other site 1249661001032 Switch II region; other site 1249661001033 G4 box; other site 1249661001034 G5 box; other site 1249661001035 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 1249661001036 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 1249661001037 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 1249661001038 elongation factor Tu; Reviewed; Region: PRK00049 1249661001039 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1249661001040 G1 box; other site 1249661001041 GEF interaction site [polypeptide binding]; other site 1249661001042 GTP/Mg2+ binding site [chemical binding]; other site 1249661001043 Switch I region; other site 1249661001044 G2 box; other site 1249661001045 G3 box; other site 1249661001046 Switch II region; other site 1249661001047 G4 box; other site 1249661001048 G5 box; other site 1249661001049 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 1249661001050 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 1249661001051 Antibiotic Binding Site [chemical binding]; other site 1249661001052 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1249661001053 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1249661001054 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1249661001055 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1249661001056 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1249661001057 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1249661001058 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1249661001059 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1249661001060 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 1249661001061 putative translocon binding site; other site 1249661001062 protein-rRNA interface [nucleotide binding]; other site 1249661001063 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1249661001064 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 1249661001065 G-X-X-G motif; other site 1249661001066 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1249661001067 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 1249661001068 23S rRNA interface [nucleotide binding]; other site 1249661001069 5S rRNA interface [nucleotide binding]; other site 1249661001070 putative antibiotic binding site [chemical binding]; other site 1249661001071 L25 interface [polypeptide binding]; other site 1249661001072 L27 interface [polypeptide binding]; other site 1249661001073 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 1249661001074 23S rRNA interface [nucleotide binding]; other site 1249661001075 putative translocon interaction site; other site 1249661001076 signal recognition particle (SRP54) interaction site; other site 1249661001077 L23 interface [polypeptide binding]; other site 1249661001078 trigger factor interaction site; other site 1249661001079 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1249661001080 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1249661001081 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1249661001082 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1249661001083 RNA binding site [nucleotide binding]; other site 1249661001084 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1249661001085 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1249661001086 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1249661001087 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1249661001088 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1249661001089 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1249661001090 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1249661001091 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1249661001092 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 1249661001093 5S rRNA interface [nucleotide binding]; other site 1249661001094 L27 interface [polypeptide binding]; other site 1249661001095 23S rRNA interface [nucleotide binding]; other site 1249661001096 L5 interface [polypeptide binding]; other site 1249661001097 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1249661001098 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1249661001099 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1249661001100 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1249661001101 23S rRNA binding site [nucleotide binding]; other site 1249661001102 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1249661001103 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1249661001104 SecY translocase; Region: SecY; pfam00344 1249661001105 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 1249661001106 rRNA binding site [nucleotide binding]; other site 1249661001107 predicted 30S ribosome binding site; other site 1249661001108 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1249661001109 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1249661001110 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1249661001111 30S ribosomal protein S11; Validated; Region: PRK05309 1249661001112 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1249661001113 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1249661001114 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 1249661001115 RNA binding surface [nucleotide binding]; other site 1249661001116 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1249661001117 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1249661001118 alphaNTD homodimer interface [polypeptide binding]; other site 1249661001119 alphaNTD - beta interaction site [polypeptide binding]; other site 1249661001120 alphaNTD - beta' interaction site [polypeptide binding]; other site 1249661001121 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1249661001122 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1249661001123 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1249661001124 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1249661001125 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1249661001126 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1249661001127 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 1249661001128 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661001129 DsbD alpha interface [polypeptide binding]; other site 1249661001130 catalytic residues [active] 1249661001131 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 1249661001132 dimer interface [polypeptide binding]; other site 1249661001133 active site 1249661001134 aspartate-rich active site metal binding site; other site 1249661001135 allosteric magnesium binding site [ion binding]; other site 1249661001136 Schiff base residues; other site 1249661001137 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1249661001138 G1 box; other site 1249661001139 GTP/Mg2+ binding site [chemical binding]; other site 1249661001140 Switch I region; other site 1249661001141 G2 box; other site 1249661001142 G3 box; other site 1249661001143 Switch II region; other site 1249661001144 G4 box; other site 1249661001145 G5 box; other site 1249661001146 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1249661001147 Cytochrome c; Region: Cytochrom_C; cl11414 1249661001148 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1249661001149 ResB-like family; Region: ResB; pfam05140 1249661001150 ResB-like family; Region: ResB; pfam05140 1249661001151 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1249661001152 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1249661001153 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 1249661001154 Moco binding site; other site 1249661001155 metal coordination site [ion binding]; other site 1249661001156 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1249661001157 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1249661001158 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1249661001159 active site 1249661001160 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249661001161 substrate binding site [chemical binding]; other site 1249661001162 catalytic residues [active] 1249661001163 dimer interface [polypeptide binding]; other site 1249661001164 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1249661001165 putative iron binding site [ion binding]; other site 1249661001166 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1249661001167 Transglycosylase; Region: Transgly; pfam00912 1249661001168 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249661001169 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1249661001170 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1249661001171 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661001172 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661001173 shikimate kinase; Reviewed; Region: aroK; PRK00131 1249661001174 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 1249661001175 ADP binding site [chemical binding]; other site 1249661001176 magnesium binding site [ion binding]; other site 1249661001177 putative shikimate binding site; other site 1249661001178 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1249661001179 active site 1249661001180 dimer interface [polypeptide binding]; other site 1249661001181 metal binding site [ion binding]; metal-binding site 1249661001182 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1249661001183 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249661001184 Zn2+ binding site [ion binding]; other site 1249661001185 Mg2+ binding site [ion binding]; other site 1249661001186 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1249661001187 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1249661001188 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 1249661001189 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 1249661001190 dimer interface [polypeptide binding]; other site 1249661001191 conserved gate region; other site 1249661001192 putative PBP binding loops; other site 1249661001193 ABC-ATPase subunit interface; other site 1249661001194 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1249661001195 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 1249661001196 dimer interface [polypeptide binding]; other site 1249661001197 conserved gate region; other site 1249661001198 putative PBP binding loops; other site 1249661001199 ABC-ATPase subunit interface; other site 1249661001200 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1249661001201 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1249661001202 Walker A/P-loop; other site 1249661001203 ATP binding site [chemical binding]; other site 1249661001204 Q-loop/lid; other site 1249661001205 ABC transporter signature motif; other site 1249661001206 Walker B; other site 1249661001207 D-loop; other site 1249661001208 H-loop/switch region; other site 1249661001209 TOBE domain; Region: TOBE_2; pfam08402 1249661001210 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1249661001211 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1249661001212 active site 1249661001213 catalytic site [active] 1249661001214 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1249661001215 Transposase IS200 like; Region: Y1_Tnp; cl00848 1249661001216 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1249661001217 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 1249661001218 active site 1249661001219 dimer interface [polypeptide binding]; other site 1249661001220 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1249661001221 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 1249661001222 active site 1249661001223 FMN binding site [chemical binding]; other site 1249661001224 substrate binding site [chemical binding]; other site 1249661001225 3Fe-4S cluster binding site [ion binding]; other site 1249661001226 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 1249661001227 domain interface; other site 1249661001228 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1249661001229 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661001230 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661001231 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1249661001232 amino acid carrier protein; Region: agcS; TIGR00835 1249661001233 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1249661001234 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1249661001235 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1249661001236 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1249661001237 benzoate transport; Region: 2A0115; TIGR00895 1249661001238 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661001239 putative substrate translocation pore; other site 1249661001240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661001241 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1249661001242 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1249661001243 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1249661001244 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1249661001245 sulfur carrier protein ThiS; Provisional; Region: PRK06944 1249661001246 charged pocket; other site 1249661001247 hydrophobic patch; other site 1249661001248 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 1249661001249 ThiS interaction site; other site 1249661001250 putative active site [active] 1249661001251 tetramer interface [polypeptide binding]; other site 1249661001252 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 1249661001253 thiamine phosphate binding site [chemical binding]; other site 1249661001254 active site 1249661001255 pyrophosphate binding site [ion binding]; other site 1249661001256 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1249661001257 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1249661001258 Walker A/P-loop; other site 1249661001259 ATP binding site [chemical binding]; other site 1249661001260 Q-loop/lid; other site 1249661001261 ABC transporter signature motif; other site 1249661001262 Walker B; other site 1249661001263 D-loop; other site 1249661001264 H-loop/switch region; other site 1249661001265 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1249661001266 Permease; Region: Permease; pfam02405 1249661001267 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1249661001268 mce related protein; Region: MCE; pfam02470 1249661001269 VacJ like lipoprotein; Region: VacJ; cl01073 1249661001270 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1249661001271 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 1249661001272 anti sigma factor interaction site; other site 1249661001273 regulatory phosphorylation site [posttranslational modification]; other site 1249661001274 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1249661001275 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1249661001276 Walker A/P-loop; other site 1249661001277 ATP binding site [chemical binding]; other site 1249661001278 Q-loop/lid; other site 1249661001279 ABC transporter signature motif; other site 1249661001280 Walker B; other site 1249661001281 D-loop; other site 1249661001282 H-loop/switch region; other site 1249661001283 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1249661001284 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1249661001285 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1249661001286 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1249661001287 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 1249661001288 hinge; other site 1249661001289 active site 1249661001290 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1249661001291 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1249661001292 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1249661001293 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 1249661001294 NAD binding site [chemical binding]; other site 1249661001295 dimerization interface [polypeptide binding]; other site 1249661001296 product binding site; other site 1249661001297 substrate binding site [chemical binding]; other site 1249661001298 zinc binding site [ion binding]; other site 1249661001299 catalytic residues [active] 1249661001300 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 1249661001301 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 1249661001302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661001303 homodimer interface [polypeptide binding]; other site 1249661001304 catalytic residue [active] 1249661001305 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1249661001306 putative active site pocket [active] 1249661001307 4-fold oligomerization interface [polypeptide binding]; other site 1249661001308 metal binding residues [ion binding]; metal-binding site 1249661001309 3-fold/trimer interface [polypeptide binding]; other site 1249661001310 MarC family integral membrane protein; Region: MarC; cl00919 1249661001311 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1249661001312 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1249661001313 putative active site [active] 1249661001314 oxyanion strand; other site 1249661001315 catalytic triad [active] 1249661001316 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 1249661001317 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1249661001318 catalytic residues [active] 1249661001319 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1249661001320 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1249661001321 substrate binding site [chemical binding]; other site 1249661001322 glutamase interaction surface [polypeptide binding]; other site 1249661001323 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1249661001324 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 1249661001325 metal binding site [ion binding]; metal-binding site 1249661001326 Predicted membrane protein [Function unknown]; Region: COG3671 1249661001327 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 1249661001328 nucleotide binding site/active site [active] 1249661001329 HIT family signature motif; other site 1249661001330 catalytic residue [active] 1249661001331 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1249661001332 sec-independent translocase; Provisional; Region: tatB; PRK01919 1249661001333 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1249661001334 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1249661001335 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1249661001336 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 1249661001337 protein binding site [polypeptide binding]; other site 1249661001338 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1249661001339 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1249661001340 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1249661001341 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 1249661001342 [2Fe-2S] cluster binding site [ion binding]; other site 1249661001343 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1249661001344 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1249661001345 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 1249661001346 C-terminal domain interface [polypeptide binding]; other site 1249661001347 putative GSH binding site (G-site) [chemical binding]; other site 1249661001348 dimer interface [polypeptide binding]; other site 1249661001349 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1249661001350 dimer interface [polypeptide binding]; other site 1249661001351 N-terminal domain interface [polypeptide binding]; other site 1249661001352 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1249661001353 integrase; Provisional; Region: PRK09692 1249661001354 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 1249661001355 active site 1249661001356 Int/Topo IB signature motif; other site 1249661001357 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1249661001358 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1249661001359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1249661001360 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1249661001361 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 1249661001362 non-specific DNA binding site [nucleotide binding]; other site 1249661001363 salt bridge; other site 1249661001364 sequence-specific DNA binding site [nucleotide binding]; other site 1249661001365 Methyltransferase domain; Region: Methyltransf_27; pfam13708 1249661001366 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 1249661001367 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 1249661001368 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661001369 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661001370 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661001371 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661001372 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 1249661001373 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1249661001374 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1249661001375 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1249661001376 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1249661001377 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1249661001378 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1249661001379 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249661001380 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1249661001381 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1249661001382 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 1249661001383 ATP binding site [chemical binding]; other site 1249661001384 putative Mg++ binding site [ion binding]; other site 1249661001385 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1249661001386 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1249661001387 active site 1249661001388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661001389 Walker A/P-loop; other site 1249661001390 ATP binding site [chemical binding]; other site 1249661001391 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661001392 Q-loop/lid; other site 1249661001393 ABC transporter signature motif; other site 1249661001394 Walker B; other site 1249661001395 D-loop; other site 1249661001396 H-loop/switch region; other site 1249661001397 Divergent AAA domain; Region: AAA_4; pfam04326 1249661001398 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1249661001399 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 1249661001400 non-specific DNA binding site [nucleotide binding]; other site 1249661001401 salt bridge; other site 1249661001402 sequence-specific DNA binding site [nucleotide binding]; other site 1249661001403 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1249661001404 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1249661001405 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1249661001406 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1249661001407 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1249661001408 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1249661001409 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 1249661001410 TPR motif; other site 1249661001411 binding surface 1249661001412 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1249661001413 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1249661001414 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1249661001415 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1249661001416 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 1249661001417 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1249661001418 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1249661001419 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1249661001420 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1249661001421 Clp amino terminal domain; Region: Clp_N; pfam02861 1249661001422 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 1249661001423 Walker A motif; other site 1249661001424 ATP binding site [chemical binding]; other site 1249661001425 Walker B motif; other site 1249661001426 arginine finger; other site 1249661001427 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 1249661001428 Walker A motif; other site 1249661001429 ATP binding site [chemical binding]; other site 1249661001430 Walker B motif; other site 1249661001431 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1249661001432 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1249661001433 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1249661001434 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1249661001435 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661001436 ligand binding site [chemical binding]; other site 1249661001437 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 1249661001438 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1249661001439 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1249661001440 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1249661001441 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1249661001442 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1249661001443 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1249661001444 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1249661001445 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1249661001446 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 1249661001447 putative active site [active] 1249661001448 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249661001449 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1249661001450 Walker A/P-loop; other site 1249661001451 ATP binding site [chemical binding]; other site 1249661001452 Q-loop/lid; other site 1249661001453 ABC transporter signature motif; other site 1249661001454 Walker B; other site 1249661001455 D-loop; other site 1249661001456 H-loop/switch region; other site 1249661001457 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1249661001458 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661001459 Monopolin complex subunit LRS4; Region: LRS4; pfam10422 1249661001460 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661001461 Peptidase family M1; Region: Peptidase_M1; pfam01433 1249661001462 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1249661001463 Zn binding site [ion binding]; other site 1249661001464 Water Stress and Hypersensitive response; Region: WHy; smart00769 1249661001465 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1249661001466 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1249661001467 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 1249661001468 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1249661001469 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249661001470 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1249661001471 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661001472 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661001473 D-galactonate transporter; Region: 2A0114; TIGR00893 1249661001474 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661001475 putative substrate translocation pore; other site 1249661001476 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 1249661001477 putative FMN binding site [chemical binding]; other site 1249661001478 putative chaperone; Provisional; Region: PRK11678 1249661001479 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1249661001480 nucleotide binding site [chemical binding]; other site 1249661001481 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1249661001482 SBD interface [polypeptide binding]; other site 1249661001483 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 1249661001484 DNA-binding site [nucleotide binding]; DNA binding site 1249661001485 RNA-binding motif; other site 1249661001486 amino acid transporter; Region: 2A0306; TIGR00909 1249661001487 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 1249661001488 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1249661001489 putative active site [active] 1249661001490 metal binding site [ion binding]; metal-binding site 1249661001491 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1249661001492 Flavoprotein; Region: Flavoprotein; pfam02441 1249661001493 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 1249661001494 putative GSH binding site [chemical binding]; other site 1249661001495 catalytic residues [active] 1249661001496 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1249661001497 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 1249661001498 S-adenosylmethionine binding site [chemical binding]; other site 1249661001499 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1249661001500 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1249661001501 RF-1 domain; Region: RF-1; pfam00472 1249661001502 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1249661001503 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1249661001504 tRNA; other site 1249661001505 putative tRNA binding site [nucleotide binding]; other site 1249661001506 putative NADP binding site [chemical binding]; other site 1249661001507 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1249661001508 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1249661001509 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1249661001510 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 1249661001511 active site 1249661001512 Isochorismatase family; Region: Isochorismatase; pfam00857 1249661001513 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 1249661001514 catalytic triad [active] 1249661001515 conserved cis-peptide bond; other site 1249661001516 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1249661001517 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 1249661001518 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1249661001519 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661001520 Walker A/P-loop; other site 1249661001521 ATP binding site [chemical binding]; other site 1249661001522 Q-loop/lid; other site 1249661001523 ABC transporter signature motif; other site 1249661001524 Walker B; other site 1249661001525 D-loop; other site 1249661001526 H-loop/switch region; other site 1249661001527 ABC transporter; Region: ABC_tran_2; pfam12848 1249661001528 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249661001529 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 1249661001530 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1249661001531 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1249661001532 active site 1249661001533 catalytic site [active] 1249661001534 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1249661001535 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661001536 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1249661001537 Helix-turn-helix domain; Region: HTH_18; pfam12833 1249661001538 GTP-binding protein YchF; Reviewed; Region: PRK09601 1249661001539 YchF GTPase; Region: YchF; cd01900 1249661001540 G1 box; other site 1249661001541 GTP/Mg2+ binding site [chemical binding]; other site 1249661001542 Switch I region; other site 1249661001543 G2 box; other site 1249661001544 Switch II region; other site 1249661001545 G3 box; other site 1249661001546 G4 box; other site 1249661001547 G5 box; other site 1249661001548 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 1249661001549 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 1249661001550 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1249661001551 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1249661001552 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 1249661001553 dimerization domain [polypeptide binding]; other site 1249661001554 dimer interface [polypeptide binding]; other site 1249661001555 catalytic residues [active] 1249661001556 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1249661001557 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1249661001558 PDZ domain; Region: PDZ_2; pfam13180 1249661001559 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1249661001560 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1249661001561 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1249661001562 ligand binding site [chemical binding]; other site 1249661001563 active site 1249661001564 UGI interface [polypeptide binding]; other site 1249661001565 catalytic site [active] 1249661001566 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1249661001567 putative active site [active] 1249661001568 putative metal binding residues [ion binding]; other site 1249661001569 signature motif; other site 1249661001570 putative triphosphate binding site [ion binding]; other site 1249661001571 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 1249661001572 active site 1249661001573 ribulose/triose binding site [chemical binding]; other site 1249661001574 phosphate binding site [ion binding]; other site 1249661001575 substrate (anthranilate) binding pocket [chemical binding]; other site 1249661001576 product (indole) binding pocket [chemical binding]; other site 1249661001577 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1249661001578 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1249661001579 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1249661001580 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1249661001581 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1249661001582 glutamine binding [chemical binding]; other site 1249661001583 catalytic triad [active] 1249661001584 anthranilate synthase component I; Provisional; Region: PRK13565 1249661001585 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1249661001586 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1249661001587 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1249661001588 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 1249661001589 motif II; other site 1249661001590 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 1249661001591 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1249661001592 substrate binding site [chemical binding]; other site 1249661001593 hexamer interface [polypeptide binding]; other site 1249661001594 metal binding site [ion binding]; metal-binding site 1249661001595 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1249661001596 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1249661001597 MltA specific insert domain; Region: MltA; smart00925 1249661001598 3D domain; Region: 3D; pfam06725 1249661001599 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1249661001600 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1249661001601 active site 1249661001602 AMP binding site [chemical binding]; other site 1249661001603 homodimer interface [polypeptide binding]; other site 1249661001604 acyl-activating enzyme (AAE) consensus motif; other site 1249661001605 CoA binding site [chemical binding]; other site 1249661001606 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 1249661001607 CoenzymeA binding site [chemical binding]; other site 1249661001608 subunit interaction site [polypeptide binding]; other site 1249661001609 PHB binding site; other site 1249661001610 enoyl-CoA hydratase; Provisional; Region: PRK08140 1249661001611 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 1249661001612 substrate binding site [chemical binding]; other site 1249661001613 oxyanion hole (OAH) forming residues; other site 1249661001614 trimer interface [polypeptide binding]; other site 1249661001615 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1249661001616 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 1249661001617 dimer interface [polypeptide binding]; other site 1249661001618 active site 1249661001619 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 1249661001620 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1249661001621 NAD(P) binding site [chemical binding]; other site 1249661001622 catalytic residues [active] 1249661001623 enoyl-CoA hydratase; Provisional; Region: PRK05862 1249661001624 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 1249661001625 substrate binding site [chemical binding]; other site 1249661001626 oxyanion hole (OAH) forming residues; other site 1249661001627 trimer interface [polypeptide binding]; other site 1249661001628 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 1249661001629 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1249661001630 putative [4Fe-4S] binding site [ion binding]; other site 1249661001631 putative molybdopterin cofactor binding site [chemical binding]; other site 1249661001632 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 1249661001633 putative molybdopterin cofactor binding site; other site 1249661001634 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1249661001635 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1249661001636 acyl-activating enzyme (AAE) consensus motif; other site 1249661001637 putative AMP binding site [chemical binding]; other site 1249661001638 putative active site [active] 1249661001639 putative CoA binding site [chemical binding]; other site 1249661001640 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661001641 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 1249661001642 trimer interface [polypeptide binding]; other site 1249661001643 eyelet of channel; other site 1249661001644 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1249661001645 diiron binding motif [ion binding]; other site 1249661001646 cell division protein MraZ; Reviewed; Region: PRK00326 1249661001647 MraZ protein; Region: MraZ; pfam02381 1249661001648 MraZ protein; Region: MraZ; pfam02381 1249661001649 MraW methylase family; Region: Methyltransf_5; cl17771 1249661001650 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1249661001651 Cell division protein FtsL; Region: FtsL; pfam04999 1249661001652 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1249661001653 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1249661001654 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1249661001655 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1249661001656 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249661001657 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249661001658 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1249661001659 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249661001660 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249661001661 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249661001662 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1249661001663 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 1249661001664 Mg++ binding site [ion binding]; other site 1249661001665 putative catalytic motif [active] 1249661001666 putative substrate binding site [chemical binding]; other site 1249661001667 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1249661001668 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249661001669 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249661001670 cell division protein FtsW; Region: ftsW; TIGR02614 1249661001671 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1249661001672 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 1249661001673 active site 1249661001674 homodimer interface [polypeptide binding]; other site 1249661001675 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1249661001676 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249661001677 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249661001678 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249661001679 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1249661001680 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1249661001681 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249661001682 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1249661001683 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1249661001684 Cell division protein FtsQ; Region: FtsQ; pfam03799 1249661001685 cell division protein FtsA; Region: ftsA; TIGR01174 1249661001686 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249661001687 nucleotide binding site [chemical binding]; other site 1249661001688 Cell division protein FtsA; Region: FtsA; pfam14450 1249661001689 cell division protein FtsZ; Validated; Region: PRK09330 1249661001690 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 1249661001691 nucleotide binding site [chemical binding]; other site 1249661001692 SulA interaction site; other site 1249661001693 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 1249661001694 catalytic triad [active] 1249661001695 dimer interface [polypeptide binding]; other site 1249661001696 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1249661001697 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1249661001698 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1249661001699 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1249661001700 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 1249661001701 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1249661001702 SEC-C motif; Region: SEC-C; pfam02810 1249661001703 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 1249661001704 heterotetramer interface [polypeptide binding]; other site 1249661001705 active site pocket [active] 1249661001706 cleavage site 1249661001707 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1249661001708 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 1249661001709 Walker A motif; other site 1249661001710 ATP binding site [chemical binding]; other site 1249661001711 Walker B motif; other site 1249661001712 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 1249661001713 active site 1249661001714 8-oxo-dGMP binding site [chemical binding]; other site 1249661001715 nudix motif; other site 1249661001716 metal binding site [ion binding]; metal-binding site 1249661001717 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1249661001718 hypothetical protein; Provisional; Region: PRK05287 1249661001719 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1249661001720 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 1249661001721 CoA-binding site [chemical binding]; other site 1249661001722 ATP-binding [chemical binding]; other site 1249661001723 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 1249661001724 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1249661001725 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1249661001726 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1249661001727 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661001728 Type II/IV secretion system protein; Region: T2SE; pfam00437 1249661001729 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 1249661001730 Walker A motif; other site 1249661001731 ATP binding site [chemical binding]; other site 1249661001732 Walker B motif; other site 1249661001733 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1249661001734 Domain of unknown function DUF21; Region: DUF21; pfam01595 1249661001735 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 1249661001736 Transporter associated domain; Region: CorC_HlyC; smart01091 1249661001737 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1249661001738 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1249661001739 substrate binding pocket [chemical binding]; other site 1249661001740 chain length determination region; other site 1249661001741 substrate-Mg2+ binding site; other site 1249661001742 catalytic residues [active] 1249661001743 aspartate-rich region 1; other site 1249661001744 active site lid residues [active] 1249661001745 aspartate-rich region 2; other site 1249661001746 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1249661001747 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1249661001748 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1249661001749 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1249661001750 GTP1/OBG; Region: GTP1_OBG; pfam01018 1249661001751 Obg GTPase; Region: Obg; cd01898 1249661001752 G1 box; other site 1249661001753 GTP/Mg2+ binding site [chemical binding]; other site 1249661001754 Switch I region; other site 1249661001755 G2 box; other site 1249661001756 G3 box; other site 1249661001757 Switch II region; other site 1249661001758 G4 box; other site 1249661001759 G5 box; other site 1249661001760 gamma-glutamyl kinase; Provisional; Region: PRK05429 1249661001761 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 1249661001762 nucleotide binding site [chemical binding]; other site 1249661001763 homotetrameric interface [polypeptide binding]; other site 1249661001764 putative phosphate binding site [ion binding]; other site 1249661001765 putative allosteric binding site; other site 1249661001766 PUA domain; Region: PUA; pfam01472 1249661001767 CNP1-like family; Region: CNP1; pfam08750 1249661001768 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 1249661001769 putative active site [active] 1249661001770 Ap4A binding site [chemical binding]; other site 1249661001771 nudix motif; other site 1249661001772 putative metal binding site [ion binding]; other site 1249661001773 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1249661001774 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 1249661001775 dimer interface [polypeptide binding]; other site 1249661001776 motif 1; other site 1249661001777 active site 1249661001778 motif 2; other site 1249661001779 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 1249661001780 putative deacylase active site [active] 1249661001781 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 1249661001782 active site 1249661001783 motif 3; other site 1249661001784 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 1249661001785 anticodon binding site; other site 1249661001786 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1249661001787 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661001788 active site 1249661001789 signal recognition particle protein; Provisional; Region: PRK10867 1249661001790 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1249661001791 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 1249661001792 P loop; other site 1249661001793 GTP binding site [chemical binding]; other site 1249661001794 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1249661001795 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1249661001796 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1249661001797 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 1249661001798 amidase catalytic site [active] 1249661001799 Zn binding residues [ion binding]; other site 1249661001800 substrate binding site [chemical binding]; other site 1249661001801 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1249661001802 ATP cone domain; Region: ATP-cone; pfam03477 1249661001803 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1249661001804 active site 1249661001805 dimer interface [polypeptide binding]; other site 1249661001806 catalytic residues [active] 1249661001807 effector binding site; other site 1249661001808 R2 peptide binding site; other site 1249661001809 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1249661001810 dimer interface [polypeptide binding]; other site 1249661001811 putative radical transfer pathway; other site 1249661001812 diiron center [ion binding]; other site 1249661001813 tyrosyl radical; other site 1249661001814 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1249661001815 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661001816 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 1249661001817 substrate binding site [chemical binding]; other site 1249661001818 ATP binding site [chemical binding]; other site 1249661001819 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 1249661001820 dimer interface [polypeptide binding]; other site 1249661001821 catalytic triad [active] 1249661001822 peroxidatic and resolving cysteines [active] 1249661001823 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1249661001824 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1249661001825 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1249661001826 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 1249661001827 S-adenosylmethionine binding site [chemical binding]; other site 1249661001828 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1249661001829 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249661001830 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249661001831 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1249661001832 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1249661001833 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 1249661001834 carboxyltransferase (CT) interaction site; other site 1249661001835 biotinylation site [posttranslational modification]; other site 1249661001836 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 1249661001837 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1249661001838 active site 1249661001839 trimer interface [polypeptide binding]; other site 1249661001840 dimer interface [polypeptide binding]; other site 1249661001841 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 1249661001842 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661001843 catalytic residues [active] 1249661001844 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1249661001845 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249661001846 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249661001847 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249661001848 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1249661001849 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1249661001850 RNB domain; Region: RNB; pfam00773 1249661001851 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1249661001852 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1249661001853 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1249661001854 shikimate binding site; other site 1249661001855 NAD(P) binding site [chemical binding]; other site 1249661001856 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1249661001857 Transglycosylase; Region: Transgly; cl17702 1249661001858 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1249661001859 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1249661001860 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661001861 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249661001862 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661001863 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1249661001864 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1249661001865 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1249661001866 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1249661001867 active site 1249661001868 intersubunit interface [polypeptide binding]; other site 1249661001869 catalytic residue [active] 1249661001870 short chain dehydrogenase; Provisional; Region: PRK07063 1249661001871 classical (c) SDRs; Region: SDR_c; cd05233 1249661001872 NAD(P) binding site [chemical binding]; other site 1249661001873 active site 1249661001874 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 1249661001875 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1249661001876 ligand binding site [chemical binding]; other site 1249661001877 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 1249661001878 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661001879 Walker A/P-loop; other site 1249661001880 ATP binding site [chemical binding]; other site 1249661001881 Q-loop/lid; other site 1249661001882 ABC transporter signature motif; other site 1249661001883 Walker B; other site 1249661001884 D-loop; other site 1249661001885 H-loop/switch region; other site 1249661001886 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661001887 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661001888 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 1249661001889 TM-ABC transporter signature motif; other site 1249661001890 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1249661001891 classical (c) SDRs; Region: SDR_c; cd05233 1249661001892 NAD(P) binding site [chemical binding]; other site 1249661001893 active site 1249661001894 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1249661001895 active site 1249661001896 catalytic residues [active] 1249661001897 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 1249661001898 active site 1249661001899 dimer interface [polypeptide binding]; other site 1249661001900 Competence-damaged protein; Region: CinA; pfam02464 1249661001901 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1249661001902 tetramer interfaces [polypeptide binding]; other site 1249661001903 binuclear metal-binding site [ion binding]; other site 1249661001904 thiamine monophosphate kinase; Provisional; Region: PRK05731 1249661001905 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 1249661001906 ATP binding site [chemical binding]; other site 1249661001907 dimerization interface [polypeptide binding]; other site 1249661001908 malic enzyme; Reviewed; Region: PRK12862 1249661001909 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1249661001910 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1249661001911 putative NAD(P) binding site [chemical binding]; other site 1249661001912 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1249661001913 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 1249661001914 active site 1249661001915 barstar interaction site; other site 1249661001916 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 1249661001917 putative RNAase interaction site [polypeptide binding]; other site 1249661001918 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1249661001919 RNA methyltransferase, RsmE family; Region: TIGR00046 1249661001920 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 1249661001921 putative dimer interface [polypeptide binding]; other site 1249661001922 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661001923 spermidine synthase; Provisional; Region: PRK00811 1249661001924 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 1249661001925 transketolase; Reviewed; Region: PRK12753 1249661001926 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 1249661001927 TPP-binding site [chemical binding]; other site 1249661001928 dimer interface [polypeptide binding]; other site 1249661001929 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 1249661001930 PYR/PP interface [polypeptide binding]; other site 1249661001931 dimer interface [polypeptide binding]; other site 1249661001932 TPP binding site [chemical binding]; other site 1249661001933 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1249661001934 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1249661001935 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1249661001936 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1249661001937 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1249661001938 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661001939 cyanate hydratase; Validated; Region: PRK02866 1249661001940 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1249661001941 oligomer interface [polypeptide binding]; other site 1249661001942 active site 1249661001943 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 1249661001944 active site clefts [active] 1249661001945 zinc binding site [ion binding]; other site 1249661001946 dimer interface [polypeptide binding]; other site 1249661001947 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1249661001948 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661001949 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 1249661001950 dimerization interface [polypeptide binding]; other site 1249661001951 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1249661001952 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661001953 DNA-binding site [nucleotide binding]; DNA binding site 1249661001954 FCD domain; Region: FCD; pfam07729 1249661001955 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1249661001956 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1249661001957 allantoicase; Provisional; Region: PRK13257 1249661001958 Allantoicase repeat; Region: Allantoicase; pfam03561 1249661001959 Allantoicase repeat; Region: Allantoicase; pfam03561 1249661001960 ureidoglycolate hydrolase; Provisional; Region: PRK13395 1249661001961 ferric uptake regulator; Provisional; Region: fur; PRK09462 1249661001962 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1249661001963 metal binding site 2 [ion binding]; metal-binding site 1249661001964 putative DNA binding helix; other site 1249661001965 metal binding site 1 [ion binding]; metal-binding site 1249661001966 dimer interface [polypeptide binding]; other site 1249661001967 structural Zn2+ binding site [ion binding]; other site 1249661001968 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1249661001969 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1249661001970 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1249661001971 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1249661001972 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1249661001973 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1249661001974 TolR protein; Region: tolR; TIGR02801 1249661001975 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249661001976 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1249661001977 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1249661001978 HIGH motif; other site 1249661001979 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1249661001980 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249661001981 active site 1249661001982 KMSKS motif; other site 1249661001983 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1249661001984 tRNA binding surface [nucleotide binding]; other site 1249661001985 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1249661001986 Lipopolysaccharide-assembly; Region: LptE; cl01125 1249661001987 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1249661001988 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1249661001989 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1249661001990 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1249661001991 putative catalytic cysteine [active] 1249661001992 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1249661001993 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249661001994 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249661001995 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 1249661001996 putative active site [active] 1249661001997 phosphogluconate dehydratase; Validated; Region: PRK09054 1249661001998 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1249661001999 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1249661002000 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1249661002001 active site 1249661002002 intersubunit interface [polypeptide binding]; other site 1249661002003 catalytic residue [active] 1249661002004 GntP family permease; Region: GntP_permease; pfam02447 1249661002005 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1249661002006 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 1249661002007 ATP-binding site [chemical binding]; other site 1249661002008 Gluconate-6-phosphate binding site [chemical binding]; other site 1249661002009 Shikimate kinase; Region: SKI; pfam01202 1249661002010 adenylosuccinate lyase; Provisional; Region: PRK09285 1249661002011 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1249661002012 tetramer interface [polypeptide binding]; other site 1249661002013 active site 1249661002014 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1249661002015 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661002016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661002017 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 1249661002018 dimerization interface [polypeptide binding]; other site 1249661002019 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1249661002020 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1249661002021 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1249661002022 NAD(P) binding site [chemical binding]; other site 1249661002023 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1249661002024 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 1249661002025 substrate binding pocket [chemical binding]; other site 1249661002026 membrane-bound complex binding site; other site 1249661002027 hinge residues; other site 1249661002028 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661002029 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 1249661002030 dimer interface [polypeptide binding]; other site 1249661002031 conserved gate region; other site 1249661002032 putative PBP binding loops; other site 1249661002033 ABC-ATPase subunit interface; other site 1249661002034 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661002035 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 1249661002036 dimer interface [polypeptide binding]; other site 1249661002037 conserved gate region; other site 1249661002038 putative PBP binding loops; other site 1249661002039 ABC-ATPase subunit interface; other site 1249661002040 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1249661002041 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1249661002042 Walker A/P-loop; other site 1249661002043 ATP binding site [chemical binding]; other site 1249661002044 Q-loop/lid; other site 1249661002045 ABC transporter signature motif; other site 1249661002046 Walker B; other site 1249661002047 D-loop; other site 1249661002048 H-loop/switch region; other site 1249661002049 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 1249661002050 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1249661002051 putative active site [active] 1249661002052 putative dimer interface [polypeptide binding]; other site 1249661002053 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 1249661002054 active site 1249661002055 substrate binding pocket [chemical binding]; other site 1249661002056 dimer interface [polypeptide binding]; other site 1249661002057 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1249661002058 OsmC-like protein; Region: OsmC; cl00767 1249661002059 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 1249661002060 23S rRNA interface [nucleotide binding]; other site 1249661002061 L3 interface [polypeptide binding]; other site 1249661002062 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1249661002063 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1249661002064 Cupin; Region: Cupin_6; pfam12852 1249661002065 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661002066 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661002067 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1249661002068 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 1249661002069 C-terminal domain interface [polypeptide binding]; other site 1249661002070 GSH binding site (G-site) [chemical binding]; other site 1249661002071 dimer interface [polypeptide binding]; other site 1249661002072 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1249661002073 N-terminal domain interface [polypeptide binding]; other site 1249661002074 dimer interface [polypeptide binding]; other site 1249661002075 substrate binding pocket (H-site) [chemical binding]; other site 1249661002076 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1249661002077 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 1249661002078 C-terminal domain interface [polypeptide binding]; other site 1249661002079 GSH binding site (G-site) [chemical binding]; other site 1249661002080 dimer interface [polypeptide binding]; other site 1249661002081 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1249661002082 N-terminal domain interface [polypeptide binding]; other site 1249661002083 putative dimer interface [polypeptide binding]; other site 1249661002084 active site 1249661002085 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1249661002086 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1249661002087 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1249661002088 active site 1249661002089 HIGH motif; other site 1249661002090 dimer interface [polypeptide binding]; other site 1249661002091 KMSKS motif; other site 1249661002092 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 1249661002093 RNA binding surface [nucleotide binding]; other site 1249661002094 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 1249661002095 putative active site [active] 1249661002096 dimerization interface [polypeptide binding]; other site 1249661002097 putative tRNAtyr binding site [nucleotide binding]; other site 1249661002098 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 1249661002099 catalytic core [active] 1249661002100 Putative ParB-like nuclease; Region: ParBc_2; cl17538 1249661002101 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1249661002102 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1249661002103 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 1249661002104 Walker A motif; other site 1249661002105 ATP binding site [chemical binding]; other site 1249661002106 Walker B motif; other site 1249661002107 arginine finger; other site 1249661002108 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1249661002109 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1249661002110 RuvA N terminal domain; Region: RuvA_N; pfam01330 1249661002111 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1249661002112 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 1249661002113 active site 1249661002114 putative DNA-binding cleft [nucleotide binding]; other site 1249661002115 dimer interface [polypeptide binding]; other site 1249661002116 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1249661002117 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 1249661002118 purine monophosphate binding site [chemical binding]; other site 1249661002119 dimer interface [polypeptide binding]; other site 1249661002120 putative catalytic residues [active] 1249661002121 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1249661002122 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1249661002123 DNA-binding protein Fis; Provisional; Region: PRK01905 1249661002124 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1249661002125 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 1249661002126 FMN binding site [chemical binding]; other site 1249661002127 active site 1249661002128 catalytic residues [active] 1249661002129 substrate binding site [chemical binding]; other site 1249661002130 hypothetical protein; Provisional; Region: PRK06996 1249661002131 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249661002132 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1249661002133 proline aminopeptidase P II; Provisional; Region: PRK10879 1249661002134 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 1249661002135 active site 1249661002136 putative glutathione S-transferase; Provisional; Region: PRK10357 1249661002137 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 1249661002138 putative C-terminal domain interface [polypeptide binding]; other site 1249661002139 putative GSH binding site (G-site) [chemical binding]; other site 1249661002140 putative dimer interface [polypeptide binding]; other site 1249661002141 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1249661002142 dimer interface [polypeptide binding]; other site 1249661002143 N-terminal domain interface [polypeptide binding]; other site 1249661002144 putative substrate binding pocket (H-site) [chemical binding]; other site 1249661002145 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661002146 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1249661002147 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 1249661002148 active site 1249661002149 FMN binding site [chemical binding]; other site 1249661002150 substrate binding site [chemical binding]; other site 1249661002151 3Fe-4S cluster binding site [ion binding]; other site 1249661002152 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1249661002153 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 1249661002154 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 1249661002155 nudix motif; other site 1249661002156 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1249661002157 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1249661002158 ligand binding site [chemical binding]; other site 1249661002159 homodimer interface [polypeptide binding]; other site 1249661002160 NAD(P) binding site [chemical binding]; other site 1249661002161 trimer interface B [polypeptide binding]; other site 1249661002162 trimer interface A [polypeptide binding]; other site 1249661002163 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1249661002164 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1249661002165 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1249661002166 Predicted transcriptional regulator [Transcription]; Region: COG2378 1249661002167 HTH domain; Region: HTH_11; pfam08279 1249661002168 WYL domain; Region: WYL; pfam13280 1249661002169 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 1249661002170 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 1249661002171 putative hydrophobic ligand binding site [chemical binding]; other site 1249661002172 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1249661002173 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1249661002174 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 1249661002175 Site-specific recombinase; Region: SpecificRecomb; pfam10136 1249661002176 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1249661002177 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1249661002178 mce related protein; Region: MCE; pfam02470 1249661002179 mce related protein; Region: MCE; pfam02470 1249661002180 mce related protein; Region: MCE; pfam02470 1249661002181 Paraquat-inducible protein A; Region: PqiA; pfam04403 1249661002182 Paraquat-inducible protein A; Region: PqiA; pfam04403 1249661002183 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1249661002184 YceI-like domain; Region: YceI; smart00867 1249661002185 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1249661002186 citrate-proton symporter; Provisional; Region: PRK15075 1249661002187 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661002188 putative substrate translocation pore; other site 1249661002189 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1249661002190 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1249661002191 Protein export membrane protein; Region: SecD_SecF; pfam02355 1249661002192 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1249661002193 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1249661002194 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1249661002195 Protein export membrane protein; Region: SecD_SecF; cl14618 1249661002196 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1249661002197 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1249661002198 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1249661002199 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1249661002200 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1249661002201 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1249661002202 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 1249661002203 generic binding surface II; other site 1249661002204 ssDNA binding site; other site 1249661002205 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 1249661002206 ATP binding site [chemical binding]; other site 1249661002207 putative Mg++ binding site [ion binding]; other site 1249661002208 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 1249661002209 nucleotide binding region [chemical binding]; other site 1249661002210 ATP-binding site [chemical binding]; other site 1249661002211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661002212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661002213 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 1249661002214 dimerization interface [polypeptide binding]; other site 1249661002215 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1249661002216 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1249661002217 dimer interface [polypeptide binding]; other site 1249661002218 active site 1249661002219 heme binding site [chemical binding]; other site 1249661002220 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1249661002221 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1249661002222 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1249661002223 dimerization interface [polypeptide binding]; other site 1249661002224 DPS ferroxidase diiron center [ion binding]; other site 1249661002225 ion pore; other site 1249661002226 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1249661002227 UbiA prenyltransferase family; Region: UbiA; pfam01040 1249661002228 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 1249661002229 active site 1249661002230 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1249661002231 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 1249661002232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661002233 DNA-binding site [nucleotide binding]; DNA binding site 1249661002234 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1249661002235 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1249661002236 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 1249661002237 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1249661002238 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 1249661002239 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1249661002240 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661002241 Walker A/P-loop; other site 1249661002242 ATP binding site [chemical binding]; other site 1249661002243 Q-loop/lid; other site 1249661002244 ABC transporter signature motif; other site 1249661002245 Walker B; other site 1249661002246 D-loop; other site 1249661002247 H-loop/switch region; other site 1249661002248 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661002249 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 1249661002250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661002251 Walker A/P-loop; other site 1249661002252 ATP binding site [chemical binding]; other site 1249661002253 Q-loop/lid; other site 1249661002254 ABC transporter signature motif; other site 1249661002255 Walker B; other site 1249661002256 D-loop; other site 1249661002257 H-loop/switch region; other site 1249661002258 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1249661002259 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 1249661002260 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1249661002261 active site 1249661002262 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1249661002263 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1249661002264 Walker A/P-loop; other site 1249661002265 ATP binding site [chemical binding]; other site 1249661002266 Q-loop/lid; other site 1249661002267 ABC transporter signature motif; other site 1249661002268 Walker B; other site 1249661002269 D-loop; other site 1249661002270 H-loop/switch region; other site 1249661002271 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1249661002272 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1249661002273 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 1249661002274 dimer interface [polypeptide binding]; other site 1249661002275 conserved gate region; other site 1249661002276 ABC-ATPase subunit interface; other site 1249661002277 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1249661002278 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1249661002279 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1249661002280 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249661002281 catalytic residue [active] 1249661002282 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1249661002283 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 1249661002284 Cysteine-rich domain; Region: CCG; pfam02754 1249661002285 Cysteine-rich domain; Region: CCG; pfam02754 1249661002286 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1249661002287 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661002288 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1249661002289 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661002290 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1249661002291 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661002292 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 1249661002293 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1249661002294 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 1249661002295 heme-binding site [chemical binding]; other site 1249661002296 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 1249661002297 FAD binding pocket [chemical binding]; other site 1249661002298 FAD binding motif [chemical binding]; other site 1249661002299 phosphate binding motif [ion binding]; other site 1249661002300 beta-alpha-beta structure motif; other site 1249661002301 NAD binding pocket [chemical binding]; other site 1249661002302 Heme binding pocket [chemical binding]; other site 1249661002303 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1249661002304 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249661002305 protease TldD; Provisional; Region: tldD; PRK10735 1249661002306 nitrilase; Region: PLN02798 1249661002307 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1249661002308 putative active site [active] 1249661002309 catalytic triad [active] 1249661002310 dimer interface [polypeptide binding]; other site 1249661002311 TIGR02099 family protein; Region: TIGR02099 1249661002312 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1249661002313 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1249661002314 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1249661002315 metal binding triad; other site 1249661002316 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1249661002317 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1249661002318 metal binding triad; other site 1249661002319 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1249661002320 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1249661002321 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1249661002322 Walker A/P-loop; other site 1249661002323 ATP binding site [chemical binding]; other site 1249661002324 Q-loop/lid; other site 1249661002325 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1249661002326 ABC transporter signature motif; other site 1249661002327 Walker B; other site 1249661002328 D-loop; other site 1249661002329 H-loop/switch region; other site 1249661002330 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 1249661002331 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1249661002332 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1249661002333 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1249661002334 ferrochelatase; Reviewed; Region: hemH; PRK00035 1249661002335 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 1249661002336 C-terminal domain interface [polypeptide binding]; other site 1249661002337 active site 1249661002338 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 1249661002339 active site 1249661002340 N-terminal domain interface [polypeptide binding]; other site 1249661002341 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 1249661002342 RNA binding surface [nucleotide binding]; other site 1249661002343 GrpE; Region: GrpE; pfam01025 1249661002344 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 1249661002345 dimer interface [polypeptide binding]; other site 1249661002346 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1249661002347 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1249661002348 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1249661002349 nucleotide binding site [chemical binding]; other site 1249661002350 chaperone protein DnaJ; Provisional; Region: PRK10767 1249661002351 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 1249661002352 HSP70 interaction site [polypeptide binding]; other site 1249661002353 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1249661002354 Zn binding sites [ion binding]; other site 1249661002355 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1249661002356 dimer interface [polypeptide binding]; other site 1249661002357 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1249661002358 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1249661002359 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 1249661002360 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1249661002361 homodimer interface [polypeptide binding]; other site 1249661002362 substrate-cofactor binding pocket; other site 1249661002363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661002364 catalytic residue [active] 1249661002365 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 1249661002366 oligomerization interface [polypeptide binding]; other site 1249661002367 active site 1249661002368 metal binding site [ion binding]; metal-binding site 1249661002369 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1249661002370 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 1249661002371 Substrate-binding site [chemical binding]; other site 1249661002372 Substrate specificity [chemical binding]; other site 1249661002373 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 1249661002374 catalytic center binding site [active] 1249661002375 ATP binding site [chemical binding]; other site 1249661002376 poly(A) polymerase; Region: pcnB; TIGR01942 1249661002377 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1249661002378 active site 1249661002379 NTP binding site [chemical binding]; other site 1249661002380 metal binding triad [ion binding]; metal-binding site 1249661002381 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1249661002382 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1249661002383 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1249661002384 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249661002385 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1249661002386 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 1249661002387 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1249661002388 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 1249661002389 dimerization interface [polypeptide binding]; other site 1249661002390 putative ATP binding site [chemical binding]; other site 1249661002391 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1249661002392 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1249661002393 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1249661002394 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1249661002395 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 1249661002396 ATP binding site [chemical binding]; other site 1249661002397 Mg2+ binding site [ion binding]; other site 1249661002398 G-X-G motif; other site 1249661002399 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 1249661002400 ATP binding site [chemical binding]; other site 1249661002401 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1249661002402 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1249661002403 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1249661002404 mechanosensitive channel MscS; Provisional; Region: PRK10334 1249661002405 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1249661002406 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1249661002407 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1249661002408 Substrate binding site; other site 1249661002409 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1249661002410 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1249661002411 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1249661002412 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 1249661002413 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002414 polysaccharide export protein Wza; Provisional; Region: PRK15078 1249661002415 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1249661002416 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1249661002417 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002418 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1249661002419 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 1249661002420 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002421 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1249661002422 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1249661002423 NADP-binding site; other site 1249661002424 homotetramer interface [polypeptide binding]; other site 1249661002425 substrate binding site [chemical binding]; other site 1249661002426 homodimer interface [polypeptide binding]; other site 1249661002427 active site 1249661002428 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1249661002429 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1249661002430 NADP-binding site; other site 1249661002431 homotetramer interface [polypeptide binding]; other site 1249661002432 substrate binding site [chemical binding]; other site 1249661002433 homodimer interface [polypeptide binding]; other site 1249661002434 active site 1249661002435 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002436 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 1249661002437 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 1249661002438 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002439 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1249661002440 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1249661002441 Walker A/P-loop; other site 1249661002442 ATP binding site [chemical binding]; other site 1249661002443 Q-loop/lid; other site 1249661002444 ABC transporter signature motif; other site 1249661002445 Walker B; other site 1249661002446 D-loop; other site 1249661002447 H-loop/switch region; other site 1249661002448 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1249661002449 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1249661002450 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1249661002451 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1249661002452 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1249661002453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661002454 NAD(P) binding site [chemical binding]; other site 1249661002455 active site 1249661002456 Sulfatase; Region: Sulfatase; pfam00884 1249661002457 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 1249661002458 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661002459 active site 1249661002460 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661002461 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1249661002462 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1249661002463 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249661002464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661002465 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 1249661002466 Enoylreductase; Region: PKS_ER; smart00829 1249661002467 NAD(P) binding site [chemical binding]; other site 1249661002468 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 1249661002469 KR domain; Region: KR; pfam08659 1249661002470 putative NADP binding site [chemical binding]; other site 1249661002471 active site 1249661002472 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661002473 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: PRK13187 1249661002474 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1249661002475 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1249661002476 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 1249661002477 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661002478 catalytic residue [active] 1249661002479 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249661002480 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1249661002481 putative carbohydrate binding site [chemical binding]; other site 1249661002482 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 1249661002483 active site 1249661002484 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1249661002485 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661002486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661002487 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661002488 CoA-binding domain; Region: CoA_binding_3; pfam13727 1249661002489 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1249661002490 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1249661002491 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1249661002492 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1249661002493 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1249661002494 active site 1249661002495 tyrosine kinase; Provisional; Region: PRK11519 1249661002496 Chain length determinant protein; Region: Wzz; pfam02706 1249661002497 N-Acetylglucosaminyltransferase-IV (GnT-IV) conserved region; Region: Glyco_transf_54; pfam04666 1249661002498 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1249661002499 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 1249661002500 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1249661002501 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1249661002502 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 1249661002503 trimer interface [polypeptide binding]; other site 1249661002504 active site 1249661002505 substrate binding site [chemical binding]; other site 1249661002506 CoA binding site [chemical binding]; other site 1249661002507 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002508 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 1249661002509 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002510 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 1249661002511 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 1249661002512 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249661002513 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1249661002514 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 1249661002515 active site 1249661002516 motif I; other site 1249661002517 motif II; other site 1249661002518 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1249661002519 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 1249661002520 putative active site [active] 1249661002521 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 1249661002522 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1249661002523 active site 1249661002524 tetramer interface; other site 1249661002525 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 1249661002526 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1249661002527 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1249661002528 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1249661002529 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661002530 ligand binding site [chemical binding]; other site 1249661002531 translocation protein TolB; Provisional; Region: tolB; PRK02889 1249661002532 TolB amino-terminal domain; Region: TolB_N; pfam04052 1249661002533 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1249661002534 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1249661002535 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1249661002536 TolA protein; Region: tolA_full; TIGR02794 1249661002537 TonB C terminal; Region: TonB_2; pfam13103 1249661002538 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249661002539 TolR protein; Region: tolR; TIGR02801 1249661002540 TolQ protein; Region: tolQ; TIGR02796 1249661002541 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 1249661002542 active site 1249661002543 malonic semialdehyde reductase; Provisional; Region: PRK10538 1249661002544 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1249661002545 putative NAD(P) binding site [chemical binding]; other site 1249661002546 homodimer interface [polypeptide binding]; other site 1249661002547 homotetramer interface [polypeptide binding]; other site 1249661002548 active site 1249661002549 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1249661002550 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 1249661002551 dimer interface [polypeptide binding]; other site 1249661002552 active site 1249661002553 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1249661002554 folate binding site [chemical binding]; other site 1249661002555 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1249661002556 ATP cone domain; Region: ATP-cone; pfam03477 1249661002557 Type II transport protein GspH; Region: GspH; pfam12019 1249661002558 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1249661002559 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 1249661002560 Predicted membrane protein [Function unknown]; Region: COG5393 1249661002561 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1249661002562 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1249661002563 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 1249661002564 dimer interface [polypeptide binding]; other site 1249661002565 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1249661002566 catalytic triad [active] 1249661002567 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1249661002568 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661002569 FAD binding site [chemical binding]; other site 1249661002570 substrate binding pocket [chemical binding]; other site 1249661002571 catalytic base [active] 1249661002572 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661002573 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249661002574 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661002575 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1249661002576 EAL domain; Region: EAL; pfam00563 1249661002577 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1249661002578 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 1249661002579 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249661002580 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 1249661002581 benzoate transport; Region: 2A0115; TIGR00895 1249661002582 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661002583 putative substrate translocation pore; other site 1249661002584 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661002585 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1249661002586 fumarylacetoacetase; Region: PLN02856 1249661002587 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1249661002588 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1249661002589 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661002590 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661002591 putative substrate translocation pore; other site 1249661002592 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1249661002593 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661002594 putative substrate translocation pore; other site 1249661002595 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 1249661002596 putative FMN binding site [chemical binding]; other site 1249661002597 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1249661002598 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1249661002599 putative ligand binding site [chemical binding]; other site 1249661002600 putative NAD binding site [chemical binding]; other site 1249661002601 catalytic site [active] 1249661002602 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661002603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661002604 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 1249661002605 putative effector binding pocket; other site 1249661002606 dimerization interface [polypeptide binding]; other site 1249661002607 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1249661002608 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661002609 catalytic residue [active] 1249661002610 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661002611 EamA-like transporter family; Region: EamA; pfam00892 1249661002612 EamA-like transporter family; Region: EamA; pfam00892 1249661002613 major facilitator superfamily transporter; Provisional; Region: PRK05122 1249661002614 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661002615 putative substrate translocation pore; other site 1249661002616 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1249661002617 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 1249661002618 catalytic loop [active] 1249661002619 iron binding site [ion binding]; other site 1249661002620 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1249661002621 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1249661002622 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1249661002623 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1249661002624 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1249661002625 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1249661002626 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661002627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1249661002628 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661002629 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661002630 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 1249661002631 dimerization interface [polypeptide binding]; other site 1249661002632 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 1249661002633 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1249661002634 putative catalytic residue [active] 1249661002635 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1249661002636 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1249661002637 BON domain; Region: BON; cl02771 1249661002638 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 1249661002639 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1249661002640 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1249661002641 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1249661002642 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1249661002643 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661002644 putative substrate translocation pore; other site 1249661002645 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1249661002646 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1249661002647 putative active site [active] 1249661002648 catalytic site [active] 1249661002649 putative metal binding site [ion binding]; other site 1249661002650 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661002651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661002652 Coenzyme A binding pocket [chemical binding]; other site 1249661002653 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1249661002654 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 1249661002655 non-specific DNA binding site [nucleotide binding]; other site 1249661002656 salt bridge; other site 1249661002657 sequence-specific DNA binding site [nucleotide binding]; other site 1249661002658 Cupin domain; Region: Cupin_2; cl17218 1249661002659 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1249661002660 Predicted transcriptional regulators [Transcription]; Region: COG1733 1249661002661 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 1249661002662 dimerization interface [polypeptide binding]; other site 1249661002663 putative DNA binding site [nucleotide binding]; other site 1249661002664 putative Zn2+ binding site [ion binding]; other site 1249661002665 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1249661002666 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1249661002667 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1249661002668 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1249661002669 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1249661002670 putative NAD(P) binding site [chemical binding]; other site 1249661002671 Predicted transcriptional regulators [Transcription]; Region: COG1733 1249661002672 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1249661002673 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 1249661002674 oligomerisation interface [polypeptide binding]; other site 1249661002675 mobile loop; other site 1249661002676 roof hairpin; other site 1249661002677 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1249661002678 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 1249661002679 ring oligomerisation interface [polypeptide binding]; other site 1249661002680 ATP/Mg binding site [chemical binding]; other site 1249661002681 stacking interactions; other site 1249661002682 hinge regions; other site 1249661002683 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 1249661002684 dimer interface [polypeptide binding]; other site 1249661002685 substrate binding site [chemical binding]; other site 1249661002686 ATP binding site [chemical binding]; other site 1249661002687 Rubredoxin [Energy production and conversion]; Region: COG1773 1249661002688 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 1249661002689 iron binding site [ion binding]; other site 1249661002690 hypothetical protein; Validated; Region: PRK00228 1249661002691 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1249661002692 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661002693 active site 1249661002694 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1249661002695 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1249661002696 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1249661002697 dihydroorotase; Provisional; Region: PRK07627 1249661002698 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 1249661002699 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 1249661002700 active site 1249661002701 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1249661002702 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1249661002703 putative acyl-acceptor binding pocket; other site 1249661002704 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1249661002705 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1249661002706 active site 1249661002707 metal binding site [ion binding]; metal-binding site 1249661002708 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1249661002709 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1249661002710 NAD binding site [chemical binding]; other site 1249661002711 substrate binding site [chemical binding]; other site 1249661002712 homodimer interface [polypeptide binding]; other site 1249661002713 active site 1249661002714 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1249661002715 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1249661002716 substrate binding site; other site 1249661002717 tetramer interface; other site 1249661002718 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1249661002719 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1249661002720 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1249661002721 NADP binding site [chemical binding]; other site 1249661002722 active site 1249661002723 putative substrate binding site [chemical binding]; other site 1249661002724 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1249661002725 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1249661002726 Probable Catalytic site; other site 1249661002727 metal-binding site 1249661002728 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002729 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1249661002730 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 1249661002731 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 1249661002732 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1249661002733 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 1249661002734 dimer interface [polypeptide binding]; other site 1249661002735 active site 1249661002736 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 1249661002737 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 1249661002738 Substrate binding site; other site 1249661002739 Mg++ binding site; other site 1249661002740 metal-binding site 1249661002741 Mg++ binding site; other site 1249661002742 metal-binding site 1249661002743 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 1249661002744 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 1249661002745 active site 1249661002746 motif I; other site 1249661002747 motif II; other site 1249661002748 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1249661002749 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1249661002750 Walker A/P-loop; other site 1249661002751 ATP binding site [chemical binding]; other site 1249661002752 Q-loop/lid; other site 1249661002753 ABC transporter signature motif; other site 1249661002754 Walker B; other site 1249661002755 D-loop; other site 1249661002756 H-loop/switch region; other site 1249661002757 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1249661002758 putative carbohydrate binding site [chemical binding]; other site 1249661002759 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1249661002760 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1249661002761 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1249661002762 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1249661002763 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1249661002764 Walker A/P-loop; other site 1249661002765 ATP binding site [chemical binding]; other site 1249661002766 Q-loop/lid; other site 1249661002767 ABC transporter signature motif; other site 1249661002768 Walker B; other site 1249661002769 D-loop; other site 1249661002770 H-loop/switch region; other site 1249661002771 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1249661002772 putative carbohydrate binding site [chemical binding]; other site 1249661002773 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249661002774 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 1249661002775 S-adenosylmethionine binding site [chemical binding]; other site 1249661002776 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 1249661002777 putative ligand binding site [chemical binding]; other site 1249661002778 putative catalytic site [active] 1249661002779 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 1249661002780 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002781 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249661002782 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 1249661002783 active site 1249661002784 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1249661002785 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1249661002786 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 1249661002787 active site 1249661002788 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 1249661002789 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661002790 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 1249661002791 putative NAD(P) binding site [chemical binding]; other site 1249661002792 active site 1249661002793 putative substrate binding site [chemical binding]; other site 1249661002794 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 1249661002795 Mg++ binding site [ion binding]; other site 1249661002796 putative catalytic motif [active] 1249661002797 putative substrate binding site [chemical binding]; other site 1249661002798 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1249661002799 CoA binding domain; Region: CoA_binding; cl17356 1249661002800 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1249661002801 NAD(P) binding site [chemical binding]; other site 1249661002802 homodimer interface [polypeptide binding]; other site 1249661002803 substrate binding site [chemical binding]; other site 1249661002804 active site 1249661002805 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1249661002806 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 1249661002807 Mg++ binding site [ion binding]; other site 1249661002808 putative catalytic motif [active] 1249661002809 UDP-glucose 4-epimerase; Region: PLN02240 1249661002810 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1249661002811 NAD binding site [chemical binding]; other site 1249661002812 homodimer interface [polypeptide binding]; other site 1249661002813 active site 1249661002814 substrate binding site [chemical binding]; other site 1249661002815 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 1249661002816 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661002817 putative ADP-binding pocket [chemical binding]; other site 1249661002818 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1249661002819 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 1249661002820 active site 1249661002821 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1249661002822 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1249661002823 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 1249661002824 active site 1249661002825 substrate binding site [chemical binding]; other site 1249661002826 metal binding site [ion binding]; metal-binding site 1249661002827 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249661002828 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 1249661002829 putative active site [active] 1249661002830 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 1249661002831 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1249661002832 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1249661002833 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 1249661002834 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 1249661002835 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1249661002836 UreF; Region: UreF; pfam01730 1249661002837 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1249661002838 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 1249661002839 dimer interface [polypeptide binding]; other site 1249661002840 catalytic residues [active] 1249661002841 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1249661002842 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 1249661002843 subunit interactions [polypeptide binding]; other site 1249661002844 active site 1249661002845 flap region; other site 1249661002846 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 1249661002847 gamma-beta subunit interface [polypeptide binding]; other site 1249661002848 alpha-beta subunit interface [polypeptide binding]; other site 1249661002849 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 1249661002850 alpha-gamma subunit interface [polypeptide binding]; other site 1249661002851 beta-gamma subunit interface [polypeptide binding]; other site 1249661002852 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1249661002853 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1249661002854 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1249661002855 Walker A/P-loop; other site 1249661002856 ATP binding site [chemical binding]; other site 1249661002857 Q-loop/lid; other site 1249661002858 ABC transporter signature motif; other site 1249661002859 Walker B; other site 1249661002860 D-loop; other site 1249661002861 H-loop/switch region; other site 1249661002862 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1249661002863 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1249661002864 Walker A/P-loop; other site 1249661002865 ATP binding site [chemical binding]; other site 1249661002866 Q-loop/lid; other site 1249661002867 ABC transporter signature motif; other site 1249661002868 Walker B; other site 1249661002869 D-loop; other site 1249661002870 H-loop/switch region; other site 1249661002871 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1249661002872 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 1249661002873 TM-ABC transporter signature motif; other site 1249661002874 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 1249661002875 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661002876 TM-ABC transporter signature motif; other site 1249661002877 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1249661002878 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1249661002879 putative ligand binding site [chemical binding]; other site 1249661002880 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1249661002881 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 1249661002882 inhibitor-cofactor binding pocket; inhibition site 1249661002883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661002884 catalytic residue [active] 1249661002885 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 1249661002886 active site residue [active] 1249661002887 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1249661002888 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 1249661002889 S-adenosylmethionine binding site [chemical binding]; other site 1249661002890 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1249661002891 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 1249661002892 FeS/SAM binding site; other site 1249661002893 HemN C-terminal domain; Region: HemN_C; pfam06969 1249661002894 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 1249661002895 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1249661002896 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 1249661002897 S-adenosylmethionine binding site [chemical binding]; other site 1249661002898 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1249661002899 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249661002900 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1249661002901 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1249661002902 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661002903 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1249661002904 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1249661002905 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661002906 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 1249661002907 dimer interface [polypeptide binding]; other site 1249661002908 conserved gate region; other site 1249661002909 putative PBP binding loops; other site 1249661002910 ABC-ATPase subunit interface; other site 1249661002911 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249661002912 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 1249661002913 dimer interface [polypeptide binding]; other site 1249661002914 conserved gate region; other site 1249661002915 putative PBP binding loops; other site 1249661002916 ABC-ATPase subunit interface; other site 1249661002917 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249661002918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661002919 Walker A/P-loop; other site 1249661002920 ATP binding site [chemical binding]; other site 1249661002921 Q-loop/lid; other site 1249661002922 ABC transporter signature motif; other site 1249661002923 Walker B; other site 1249661002924 D-loop; other site 1249661002925 H-loop/switch region; other site 1249661002926 TOBE domain; Region: TOBE_2; pfam08402 1249661002927 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661002928 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 1249661002929 putative DNA binding site [nucleotide binding]; other site 1249661002930 putative Zn2+ binding site [ion binding]; other site 1249661002931 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661002932 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661002933 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661002934 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 1249661002935 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1249661002936 hydrophobic ligand binding site; other site 1249661002937 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1249661002938 RES domain; Region: RES; smart00953 1249661002939 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1249661002940 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1249661002941 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1249661002942 NADP binding site [chemical binding]; other site 1249661002943 dimer interface [polypeptide binding]; other site 1249661002944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661002945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661002946 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 1249661002947 dimerization interface [polypeptide binding]; other site 1249661002948 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 1249661002949 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1249661002950 active site 1249661002951 catalytic triad [active] 1249661002952 calcium binding site [ion binding]; other site 1249661002953 chromosome condensation membrane protein; Provisional; Region: PRK14196 1249661002954 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 1249661002955 YGGT family; Region: YGGT; pfam02325 1249661002956 YGGT family; Region: YGGT; pfam02325 1249661002957 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1249661002958 Rossmann-like domain; Region: Rossmann-like; pfam10727 1249661002959 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1249661002960 serine racemase; Region: PLN02970 1249661002961 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 1249661002962 tetramer interface [polypeptide binding]; other site 1249661002963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661002964 catalytic residue [active] 1249661002965 LysE type translocator; Region: LysE; cl00565 1249661002966 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1249661002967 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1249661002968 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 1249661002969 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249661002970 catalytic residue [active] 1249661002971 aminotransferase; Validated; Region: PRK07337 1249661002972 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 1249661002973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661002974 homodimer interface [polypeptide binding]; other site 1249661002975 catalytic residue [active] 1249661002976 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1249661002977 putative RNA binding site [nucleotide binding]; other site 1249661002978 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 1249661002979 homopentamer interface [polypeptide binding]; other site 1249661002980 active site 1249661002981 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1249661002982 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1249661002983 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1249661002984 dimerization interface [polypeptide binding]; other site 1249661002985 active site 1249661002986 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1249661002987 Lumazine binding domain; Region: Lum_binding; pfam00677 1249661002988 Lumazine binding domain; Region: Lum_binding; pfam00677 1249661002989 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1249661002990 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 1249661002991 catalytic motif [active] 1249661002992 Zn binding site [ion binding]; other site 1249661002993 RibD C-terminal domain; Region: RibD_C; cl17279 1249661002994 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1249661002995 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 1249661002996 inhibitor-cofactor binding pocket; inhibition site 1249661002997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661002998 catalytic residue [active] 1249661002999 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1249661003000 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661003001 putative substrate translocation pore; other site 1249661003002 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1249661003003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661003004 Walker A/P-loop; other site 1249661003005 ATP binding site [chemical binding]; other site 1249661003006 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 1249661003007 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 1249661003008 dimer interface [polypeptide binding]; other site 1249661003009 conserved gate region; other site 1249661003010 putative PBP binding loops; other site 1249661003011 ABC-ATPase subunit interface; other site 1249661003012 cystine transporter subunit; Provisional; Region: PRK11260 1249661003013 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 1249661003014 substrate binding pocket [chemical binding]; other site 1249661003015 membrane-bound complex binding site; other site 1249661003016 hinge residues; other site 1249661003017 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 1249661003018 glucokinase; Provisional; Region: glk; PRK00292 1249661003019 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249661003020 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 1249661003021 putative active site [active] 1249661003022 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1249661003023 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 1249661003024 putative active site [active] 1249661003025 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1249661003026 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1249661003027 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1249661003028 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1249661003029 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1249661003030 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 1249661003031 dimer interface [polypeptide binding]; other site 1249661003032 conserved gate region; other site 1249661003033 putative PBP binding loops; other site 1249661003034 ABC-ATPase subunit interface; other site 1249661003035 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1249661003036 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 1249661003037 dimer interface [polypeptide binding]; other site 1249661003038 conserved gate region; other site 1249661003039 putative PBP binding loops; other site 1249661003040 ABC-ATPase subunit interface; other site 1249661003041 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1249661003042 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1249661003043 Walker A/P-loop; other site 1249661003044 ATP binding site [chemical binding]; other site 1249661003045 Q-loop/lid; other site 1249661003046 ABC transporter signature motif; other site 1249661003047 Walker B; other site 1249661003048 D-loop; other site 1249661003049 H-loop/switch region; other site 1249661003050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1249661003051 Smr domain; Region: Smr; pfam01713 1249661003052 thioredoxin reductase; Provisional; Region: PRK10262 1249661003053 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661003054 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1249661003055 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1249661003056 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1249661003057 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1249661003058 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1249661003059 recombination factor protein RarA; Reviewed; Region: PRK13342 1249661003060 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 1249661003061 Walker A motif; other site 1249661003062 ATP binding site [chemical binding]; other site 1249661003063 Walker B motif; other site 1249661003064 arginine finger; other site 1249661003065 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1249661003066 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1249661003067 seryl-tRNA synthetase; Provisional; Region: PRK05431 1249661003068 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1249661003069 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 1249661003070 dimer interface [polypeptide binding]; other site 1249661003071 active site 1249661003072 motif 1; other site 1249661003073 motif 2; other site 1249661003074 motif 3; other site 1249661003075 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661003076 Coenzyme A binding pocket [chemical binding]; other site 1249661003077 septum formation inhibitor; Reviewed; Region: PRK01973 1249661003078 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1249661003079 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1249661003080 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1249661003081 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 1249661003082 Switch I; other site 1249661003083 Switch II; other site 1249661003084 cell division topological specificity factor MinE; Provisional; Region: PRK13989 1249661003085 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1249661003086 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 1249661003087 putative ion selectivity filter; other site 1249661003088 putative pore gating glutamate residue; other site 1249661003089 putative H+/Cl- coupling transport residue; other site 1249661003090 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249661003091 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 1249661003092 putative active site [active] 1249661003093 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661003094 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249661003095 putative substrate translocation pore; other site 1249661003096 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1249661003097 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1249661003098 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 1249661003099 FeS/SAM binding site; other site 1249661003100 HemN C-terminal domain; Region: HemN_C; pfam06969 1249661003101 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 1249661003102 active site 1249661003103 dimerization interface [polypeptide binding]; other site 1249661003104 ribonuclease PH; Reviewed; Region: rph; PRK00173 1249661003105 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1249661003106 hexamer interface [polypeptide binding]; other site 1249661003107 active site 1249661003108 hypothetical protein; Provisional; Region: PRK11820 1249661003109 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1249661003110 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1249661003111 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1249661003112 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 1249661003113 catalytic site [active] 1249661003114 G-X2-G-X-G-K; other site 1249661003115 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1249661003116 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1249661003117 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249661003118 Zn2+ binding site [ion binding]; other site 1249661003119 Mg2+ binding site [ion binding]; other site 1249661003120 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1249661003121 synthetase active site [active] 1249661003122 NTP binding site [chemical binding]; other site 1249661003123 metal binding site [ion binding]; metal-binding site 1249661003124 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 1249661003125 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1249661003126 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1249661003127 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1249661003128 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1249661003129 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661003130 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 1249661003131 trimer interface [polypeptide binding]; other site 1249661003132 eyelet of channel; other site 1249661003133 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 1249661003134 DNA-binding site [nucleotide binding]; DNA binding site 1249661003135 RNA-binding motif; other site 1249661003136 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1249661003137 active site 1249661003138 catalytic site [active] 1249661003139 substrate binding site [chemical binding]; other site 1249661003140 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1249661003141 GIY-YIG motif/motif A; other site 1249661003142 active site 1249661003143 catalytic site [active] 1249661003144 putative DNA binding site [nucleotide binding]; other site 1249661003145 metal binding site [ion binding]; metal-binding site 1249661003146 chorismate mutase; Provisional; Region: PRK09269 1249661003147 Chorismate mutase type II; Region: CM_2; cl00693 1249661003148 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1249661003149 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1249661003150 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 1249661003151 N-terminal plug; other site 1249661003152 ligand-binding site [chemical binding]; other site 1249661003153 BNR repeat-like domain; Region: BNR_2; pfam13088 1249661003154 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1249661003155 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661003156 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1249661003157 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 1249661003158 AMP binding site [chemical binding]; other site 1249661003159 metal binding site [ion binding]; metal-binding site 1249661003160 active site 1249661003161 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1249661003162 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661003163 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 1249661003164 putative dimerization interface [polypeptide binding]; other site 1249661003165 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1249661003166 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 1249661003167 THF binding site; other site 1249661003168 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 1249661003169 substrate binding site [chemical binding]; other site 1249661003170 THF binding site; other site 1249661003171 zinc-binding site [ion binding]; other site 1249661003172 aminopeptidase N; Provisional; Region: pepN; PRK14015 1249661003173 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1249661003174 active site 1249661003175 Zn binding site [ion binding]; other site 1249661003176 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1249661003177 Predicted membrane protein [Function unknown]; Region: COG2119 1249661003178 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1249661003179 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1249661003180 guanine deaminase; Provisional; Region: PRK09228 1249661003181 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 1249661003182 active site 1249661003183 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1249661003184 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1249661003185 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 1249661003186 active site 1249661003187 purine riboside binding site [chemical binding]; other site 1249661003188 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1249661003189 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1249661003190 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1249661003191 disulfide bond formation protein B; Provisional; Region: PRK02110 1249661003192 amidase; Provisional; Region: PRK07056 1249661003193 Amidase; Region: Amidase; cl11426 1249661003194 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1249661003195 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1249661003196 catalytic triad [active] 1249661003197 citrate-proton symporter; Provisional; Region: PRK15075 1249661003198 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661003199 putative substrate translocation pore; other site 1249661003200 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 1249661003201 TPR motif; other site 1249661003202 binding surface 1249661003203 TPR repeat; Region: TPR_11; pfam13414 1249661003204 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 1249661003205 binding surface 1249661003206 TPR motif; other site 1249661003207 TPR repeat; Region: TPR_11; pfam13414 1249661003208 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1249661003209 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 1249661003210 binding surface 1249661003211 TPR motif; other site 1249661003212 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 1249661003213 hypothetical protein; Provisional; Region: PRK06184 1249661003214 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249661003215 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1249661003216 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1249661003217 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 1249661003218 catalytic loop [active] 1249661003219 iron binding site [ion binding]; other site 1249661003220 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 1249661003221 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 1249661003222 [4Fe-4S] binding site [ion binding]; other site 1249661003223 molybdopterin cofactor binding site; other site 1249661003224 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 1249661003225 molybdopterin cofactor binding site; other site 1249661003226 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 1249661003227 putative dimer interface [polypeptide binding]; other site 1249661003228 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1249661003229 SLBB domain; Region: SLBB; pfam10531 1249661003230 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1249661003231 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1249661003232 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 1249661003233 putative dimer interface [polypeptide binding]; other site 1249661003234 [2Fe-2S] cluster binding site [ion binding]; other site 1249661003235 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1249661003236 PBP superfamily domain; Region: PBP_like; pfam12727 1249661003237 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 1249661003238 S-adenosylmethionine binding site [chemical binding]; other site 1249661003239 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1249661003240 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 1249661003241 Walker A motif; other site 1249661003242 ATP binding site [chemical binding]; other site 1249661003243 Walker B motif; other site 1249661003244 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 1249661003245 Active Sites [active] 1249661003246 integrase; Provisional; Region: PRK09692 1249661003247 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 1249661003248 active site 1249661003249 Int/Topo IB signature motif; other site 1249661003250 phosphoglycolate phosphatase; Provisional; Region: PRK13226 1249661003251 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 1249661003252 motif II; other site 1249661003253 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1249661003254 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 1249661003255 S-adenosylmethionine binding site [chemical binding]; other site 1249661003256 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661003257 ligand binding site [chemical binding]; other site 1249661003258 DNA gyrase subunit A; Validated; Region: PRK05560 1249661003259 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 1249661003260 CAP-like domain; other site 1249661003261 active site 1249661003262 primary dimer interface [polypeptide binding]; other site 1249661003263 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249661003264 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249661003265 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249661003266 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249661003267 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249661003268 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249661003269 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1249661003270 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 1249661003271 homodimer interface [polypeptide binding]; other site 1249661003272 substrate-cofactor binding pocket; other site 1249661003273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661003274 catalytic residue [active] 1249661003275 Chorismate mutase type II; Region: CM_2; smart00830 1249661003276 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1249661003277 Prephenate dehydratase; Region: PDT; pfam00800 1249661003278 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 1249661003279 putative L-Phe binding site [chemical binding]; other site 1249661003280 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 1249661003281 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 1249661003282 hinge; other site 1249661003283 active site 1249661003284 cytidylate kinase; Provisional; Region: cmk; PRK00023 1249661003285 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 1249661003286 CMP-binding site; other site 1249661003287 The sites determining sugar specificity; other site 1249661003288 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1249661003289 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 1249661003290 RNA binding site [nucleotide binding]; other site 1249661003291 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 1249661003292 RNA binding site [nucleotide binding]; other site 1249661003293 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 1249661003294 RNA binding site [nucleotide binding]; other site 1249661003295 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 1249661003296 RNA binding site [nucleotide binding]; other site 1249661003297 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 1249661003298 RNA binding site [nucleotide binding]; other site 1249661003299 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 1249661003300 RNA binding site [nucleotide binding]; other site 1249661003301 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 1249661003302 IHF dimer interface [polypeptide binding]; other site 1249661003303 IHF - DNA interface [nucleotide binding]; other site 1249661003304 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 1249661003305 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1249661003306 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 1249661003307 binding surface 1249661003308 TPR motif; other site 1249661003309 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1249661003310 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1249661003311 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1249661003312 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1249661003313 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 1249661003314 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661003315 putative ribose interaction site [chemical binding]; other site 1249661003316 putative ADP binding site [chemical binding]; other site 1249661003317 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1249661003318 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1249661003319 NADP binding site [chemical binding]; other site 1249661003320 homopentamer interface [polypeptide binding]; other site 1249661003321 substrate binding site [chemical binding]; other site 1249661003322 active site 1249661003323 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 1249661003324 cysteine synthase B; Region: cysM; TIGR01138 1249661003325 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 1249661003326 dimer interface [polypeptide binding]; other site 1249661003327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661003328 catalytic residue [active] 1249661003329 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1249661003330 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 1249661003331 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249661003332 catalytic residue [active] 1249661003333 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1249661003334 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1249661003335 putative active site [active] 1249661003336 Zn binding site [ion binding]; other site 1249661003337 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1249661003338 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1249661003339 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1249661003340 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1249661003341 Walker A/P-loop; other site 1249661003342 ATP binding site [chemical binding]; other site 1249661003343 Q-loop/lid; other site 1249661003344 ABC transporter signature motif; other site 1249661003345 Walker B; other site 1249661003346 D-loop; other site 1249661003347 H-loop/switch region; other site 1249661003348 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 1249661003349 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 1249661003350 dimer interface [polypeptide binding]; other site 1249661003351 conserved gate region; other site 1249661003352 ABC-ATPase subunit interface; other site 1249661003353 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1249661003354 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1249661003355 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 1249661003356 Ligand binding site [chemical binding]; other site 1249661003357 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1249661003358 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1249661003359 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 1249661003360 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1249661003361 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1249661003362 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1249661003363 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661003364 active site 1249661003365 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1249661003366 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1249661003367 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661003368 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1249661003369 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1249661003370 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661003371 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1249661003372 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 1249661003373 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1249661003374 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 1249661003375 PRC-barrel domain; Region: PRC; pfam05239 1249661003376 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1249661003377 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1249661003378 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249661003379 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 1249661003380 putative active site [active] 1249661003381 putative CoA binding site [chemical binding]; other site 1249661003382 nudix motif; other site 1249661003383 metal binding site [ion binding]; metal-binding site 1249661003384 CobD/CbiB family protein; Provisional; Region: PRK07630 1249661003385 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1249661003386 GTPase RsgA; Reviewed; Region: PRK00098 1249661003387 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 1249661003388 RNA binding site [nucleotide binding]; other site 1249661003389 homodimer interface [polypeptide binding]; other site 1249661003390 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1249661003391 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1249661003392 GTP/Mg2+ binding site [chemical binding]; other site 1249661003393 G4 box; other site 1249661003394 G5 box; other site 1249661003395 G1 box; other site 1249661003396 Switch I region; other site 1249661003397 G2 box; other site 1249661003398 G3 box; other site 1249661003399 Switch II region; other site 1249661003400 Peptidase family M48; Region: Peptidase_M48; pfam01435 1249661003401 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1249661003402 catalytic site [active] 1249661003403 putative active site [active] 1249661003404 putative substrate binding site [chemical binding]; other site 1249661003405 dimer interface [polypeptide binding]; other site 1249661003406 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 1249661003407 MPT binding site; other site 1249661003408 trimer interface [polypeptide binding]; other site 1249661003409 hypothetical protein; Provisional; Region: PRK05255 1249661003410 peptidase PmbA; Provisional; Region: PRK11040 1249661003411 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1249661003412 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 1249661003413 folate binding site [chemical binding]; other site 1249661003414 NADP+ binding site [chemical binding]; other site 1249661003415 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1249661003416 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 1249661003417 Walker A motif; other site 1249661003418 ATP binding site [chemical binding]; other site 1249661003419 Walker B motif; other site 1249661003420 arginine finger; other site 1249661003421 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1249661003422 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1249661003423 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 1249661003424 Walker A motif; other site 1249661003425 ATP binding site [chemical binding]; other site 1249661003426 Walker B motif; other site 1249661003427 arginine finger; other site 1249661003428 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661003429 thymidylate synthase; Provisional; Region: thyA; PRK13821 1249661003430 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 1249661003431 dimerization interface [polypeptide binding]; other site 1249661003432 active site 1249661003433 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 1249661003434 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 1249661003435 dimerization interface [polypeptide binding]; other site 1249661003436 putative DNA binding site [nucleotide binding]; other site 1249661003437 putative Zn2+ binding site [ion binding]; other site 1249661003438 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 1249661003439 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1249661003440 Class II fumarases; Region: Fumarase_classII; cd01362 1249661003441 active site 1249661003442 tetramer interface [polypeptide binding]; other site 1249661003443 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1249661003444 putative efflux protein, MATE family; Region: matE; TIGR00797 1249661003445 cation binding site [ion binding]; other site 1249661003446 S4 domain; Region: S4_2; pfam13275 1249661003447 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 1249661003448 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1249661003449 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1249661003450 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1249661003451 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661003452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1249661003453 CreA protein; Region: CreA; pfam05981 1249661003454 Ferredoxin [Energy production and conversion]; Region: COG1146 1249661003455 4Fe-4S binding domain; Region: Fer4; cl02805 1249661003456 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1249661003457 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1249661003458 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 1249661003459 active site 1249661003460 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 1249661003461 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1249661003462 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1249661003463 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1249661003464 dimerization interface [polypeptide binding]; other site 1249661003465 ligand binding site [chemical binding]; other site 1249661003466 NADP binding site [chemical binding]; other site 1249661003467 catalytic site [active] 1249661003468 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1249661003469 RmuC family; Region: RmuC; pfam02646 1249661003470 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1249661003471 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1249661003472 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 1249661003473 dimer interface [polypeptide binding]; other site 1249661003474 putative functional site; other site 1249661003475 putative MPT binding site; other site 1249661003476 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1249661003477 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1249661003478 GTP binding site; other site 1249661003479 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1249661003480 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 1249661003481 FeS/SAM binding site; other site 1249661003482 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1249661003483 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1249661003484 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 1249661003485 homodimer interface [polypeptide binding]; other site 1249661003486 oligonucleotide binding site [chemical binding]; other site 1249661003487 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1249661003488 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 1249661003489 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249661003490 active site 1249661003491 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1249661003492 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 1249661003493 motif II; other site 1249661003494 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1249661003495 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 1249661003496 iron-sulfur cluster [ion binding]; other site 1249661003497 [2Fe-2S] cluster binding site [ion binding]; other site 1249661003498 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1249661003499 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1249661003500 tandem repeat interface [polypeptide binding]; other site 1249661003501 oligomer interface [polypeptide binding]; other site 1249661003502 active site residues [active] 1249661003503 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1249661003504 putative SAM binding site [chemical binding]; other site 1249661003505 homodimer interface [polypeptide binding]; other site 1249661003506 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 1249661003507 active site 1249661003508 dimer interface [polypeptide binding]; other site 1249661003509 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1249661003510 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1249661003511 putative phosphate acyltransferase; Provisional; Region: PRK05331 1249661003512 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1249661003513 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 1249661003514 dimer interface [polypeptide binding]; other site 1249661003515 active site 1249661003516 CoA binding pocket [chemical binding]; other site 1249661003517 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1249661003518 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661003519 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1249661003520 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1249661003521 NAD(P) binding site [chemical binding]; other site 1249661003522 homotetramer interface [polypeptide binding]; other site 1249661003523 homodimer interface [polypeptide binding]; other site 1249661003524 active site 1249661003525 acyl carrier protein; Provisional; Region: acpP; PRK00982 1249661003526 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1249661003527 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 1249661003528 dimer interface [polypeptide binding]; other site 1249661003529 active site 1249661003530 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1249661003531 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661003532 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 1249661003533 DNA binding residues [nucleotide binding] 1249661003534 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1249661003535 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1249661003536 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1249661003537 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1249661003538 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1249661003539 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 1249661003540 protein binding site [polypeptide binding]; other site 1249661003541 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 1249661003542 protein binding site [polypeptide binding]; other site 1249661003543 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1249661003544 GTP-binding protein LepA; Provisional; Region: PRK05433 1249661003545 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1249661003546 G1 box; other site 1249661003547 putative GEF interaction site [polypeptide binding]; other site 1249661003548 GTP/Mg2+ binding site [chemical binding]; other site 1249661003549 Switch I region; other site 1249661003550 G2 box; other site 1249661003551 G3 box; other site 1249661003552 Switch II region; other site 1249661003553 G4 box; other site 1249661003554 G5 box; other site 1249661003555 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 1249661003556 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 1249661003557 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1249661003558 signal peptidase I; Provisional; Region: PRK10861 1249661003559 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 1249661003560 Catalytic site [active] 1249661003561 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 1249661003562 ribonuclease III; Provisional; Region: PRK14718 1249661003563 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 1249661003564 dimerization interface [polypeptide binding]; other site 1249661003565 active site 1249661003566 metal binding site [ion binding]; metal-binding site 1249661003567 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 1249661003568 GTPase Era; Reviewed; Region: era; PRK00089 1249661003569 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1249661003570 G1 box; other site 1249661003571 GTP/Mg2+ binding site [chemical binding]; other site 1249661003572 Switch I region; other site 1249661003573 G2 box; other site 1249661003574 Switch II region; other site 1249661003575 G3 box; other site 1249661003576 G4 box; other site 1249661003577 G5 box; other site 1249661003578 KH domain; Region: KH_2; pfam07650 1249661003579 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1249661003580 Recombination protein O N terminal; Region: RecO_N; pfam11967 1249661003581 Recombination protein O C terminal; Region: RecO_C; pfam02565 1249661003582 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 1249661003583 active site 1249661003584 hydrophilic channel; other site 1249661003585 dimerization interface [polypeptide binding]; other site 1249661003586 catalytic residues [active] 1249661003587 active site lid [active] 1249661003588 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1249661003589 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1249661003590 beta-hexosaminidase; Provisional; Region: PRK05337 1249661003591 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1249661003592 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 1249661003593 active site 1249661003594 phosphorylation site [posttranslational modification] 1249661003595 intermolecular recognition site; other site 1249661003596 dimerization interface [polypeptide binding]; other site 1249661003597 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 1249661003598 Walker A motif; other site 1249661003599 ATP binding site [chemical binding]; other site 1249661003600 Walker B motif; other site 1249661003601 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661003602 elongation factor P; Validated; Region: PRK00529 1249661003603 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1249661003604 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 1249661003605 RNA binding site [nucleotide binding]; other site 1249661003606 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 1249661003607 RNA binding site [nucleotide binding]; other site 1249661003608 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1249661003609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1249661003610 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1249661003611 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1249661003612 GIY-YIG motif/motif A; other site 1249661003613 active site 1249661003614 catalytic site [active] 1249661003615 putative DNA binding site [nucleotide binding]; other site 1249661003616 metal binding site [ion binding]; metal-binding site 1249661003617 UvrB/uvrC motif; Region: UVR; pfam02151 1249661003618 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1249661003619 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1249661003620 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1249661003621 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1249661003622 CAAX protease self-immunity; Region: Abi; pfam02517 1249661003623 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1249661003624 Pirin-related protein [General function prediction only]; Region: COG1741 1249661003625 Pirin; Region: Pirin; pfam02678 1249661003626 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1249661003627 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661003628 Coenzyme A binding pocket [chemical binding]; other site 1249661003629 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1249661003630 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1249661003631 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1249661003632 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 1249661003633 Cu(I) binding site [ion binding]; other site 1249661003634 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 1249661003635 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 1249661003636 active site 1249661003637 motif I; other site 1249661003638 motif II; other site 1249661003639 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 1249661003640 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1249661003641 active site 1249661003642 homotetramer interface [polypeptide binding]; other site 1249661003643 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1249661003644 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249661003645 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1249661003646 Walker A/P-loop; other site 1249661003647 ATP binding site [chemical binding]; other site 1249661003648 Q-loop/lid; other site 1249661003649 ABC transporter signature motif; other site 1249661003650 Walker B; other site 1249661003651 D-loop; other site 1249661003652 H-loop/switch region; other site 1249661003653 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 1249661003654 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661003655 putative ADP-binding pocket [chemical binding]; other site 1249661003656 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 1249661003657 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1249661003658 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1249661003659 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 1249661003660 dimerization interface [polypeptide binding]; other site 1249661003661 ligand binding site [chemical binding]; other site 1249661003662 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1249661003663 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1249661003664 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1249661003665 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1249661003666 pyridoxamine kinase; Validated; Region: PRK05756 1249661003667 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 1249661003668 dimer interface [polypeptide binding]; other site 1249661003669 pyridoxal binding site [chemical binding]; other site 1249661003670 ATP binding site [chemical binding]; other site 1249661003671 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661003672 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1249661003673 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1249661003674 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1249661003675 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1249661003676 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 1249661003677 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 1249661003678 ligand binding site; other site 1249661003679 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 1249661003680 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 1249661003681 B12 binding site [chemical binding]; other site 1249661003682 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 1249661003683 FeS/SAM binding site; other site 1249661003684 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 1249661003685 putative active site [active] 1249661003686 YdjC motif; other site 1249661003687 Mg binding site [ion binding]; other site 1249661003688 putative homodimer interface [polypeptide binding]; other site 1249661003689 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1249661003690 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1249661003691 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661003692 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 1249661003693 dimer interface [polypeptide binding]; other site 1249661003694 conserved gate region; other site 1249661003695 putative PBP binding loops; other site 1249661003696 ABC-ATPase subunit interface; other site 1249661003697 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661003698 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 1249661003699 dimer interface [polypeptide binding]; other site 1249661003700 conserved gate region; other site 1249661003701 putative PBP binding loops; other site 1249661003702 ABC-ATPase subunit interface; other site 1249661003703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661003704 Walker A/P-loop; other site 1249661003705 ATP binding site [chemical binding]; other site 1249661003706 Q-loop/lid; other site 1249661003707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661003708 Walker B; other site 1249661003709 D-loop; other site 1249661003710 H-loop/switch region; other site 1249661003711 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1249661003712 conserved cys residue [active] 1249661003713 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661003714 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661003715 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661003716 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1249661003717 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 1249661003718 inhibitor-cofactor binding pocket; inhibition site 1249661003719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661003720 catalytic residue [active] 1249661003721 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1249661003722 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1249661003723 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1249661003724 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1249661003725 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1249661003726 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1249661003727 NAD(P) binding site [chemical binding]; other site 1249661003728 catalytic residues [active] 1249661003729 succinylarginine dihydrolase; Provisional; Region: PRK13281 1249661003730 succinylglutamate desuccinylase; Provisional; Region: PRK05324 1249661003731 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1249661003732 active site 1249661003733 Zn binding site [ion binding]; other site 1249661003734 glutathionine S-transferase; Provisional; Region: PRK10542 1249661003735 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 1249661003736 C-terminal domain interface [polypeptide binding]; other site 1249661003737 GSH binding site (G-site) [chemical binding]; other site 1249661003738 dimer interface [polypeptide binding]; other site 1249661003739 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1249661003740 dimer interface [polypeptide binding]; other site 1249661003741 N-terminal domain interface [polypeptide binding]; other site 1249661003742 substrate binding pocket (H-site) [chemical binding]; other site 1249661003743 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661003744 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661003745 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1249661003746 dimerization interface [polypeptide binding]; other site 1249661003747 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1249661003748 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 1249661003749 substrate binding pocket [chemical binding]; other site 1249661003750 membrane-bound complex binding site; other site 1249661003751 hinge residues; other site 1249661003752 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1249661003753 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 1249661003754 putative di-iron ligands [ion binding]; other site 1249661003755 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1249661003756 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 1249661003757 Subunit I/III interface [polypeptide binding]; other site 1249661003758 Subunit III/IV interface [polypeptide binding]; other site 1249661003759 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1249661003760 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 1249661003761 D-pathway; other site 1249661003762 Putative ubiquinol binding site [chemical binding]; other site 1249661003763 Low-spin heme (heme b) binding site [chemical binding]; other site 1249661003764 Putative water exit pathway; other site 1249661003765 Binuclear center (heme o3/CuB) [ion binding]; other site 1249661003766 K-pathway; other site 1249661003767 Putative proton exit pathway; other site 1249661003768 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1249661003769 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1249661003770 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1249661003771 Hemerythrin; Region: Hemerythrin; cd12107 1249661003772 Fe binding site [ion binding]; other site 1249661003773 Predicted transcriptional regulator [Transcription]; Region: COG1959 1249661003774 Transcriptional regulator; Region: Rrf2; cl17282 1249661003775 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 1249661003776 Domain of unknown function DUF59; Region: DUF59; cl00941 1249661003777 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1249661003778 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1249661003779 trimerization site [polypeptide binding]; other site 1249661003780 active site 1249661003781 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1249661003782 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 1249661003783 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661003784 catalytic residue [active] 1249661003785 FeS assembly protein SufD; Region: sufD; TIGR01981 1249661003786 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1249661003787 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1249661003788 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1249661003789 Walker A/P-loop; other site 1249661003790 ATP binding site [chemical binding]; other site 1249661003791 Q-loop/lid; other site 1249661003792 ABC transporter signature motif; other site 1249661003793 Walker B; other site 1249661003794 D-loop; other site 1249661003795 H-loop/switch region; other site 1249661003796 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1249661003797 putative ABC transporter; Region: ycf24; CHL00085 1249661003798 NnrS protein; Region: NnrS; pfam05940 1249661003799 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 1249661003800 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661003801 dimer interface [polypeptide binding]; other site 1249661003802 putative CheW interface [polypeptide binding]; other site 1249661003803 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1249661003804 HemN C-terminal domain; Region: HemN_C; pfam06969 1249661003805 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1249661003806 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 1249661003807 ligand binding site [chemical binding]; other site 1249661003808 flexible hinge region; other site 1249661003809 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1249661003810 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1249661003811 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 1249661003812 FMN binding site [chemical binding]; other site 1249661003813 substrate binding site [chemical binding]; other site 1249661003814 putative catalytic residue [active] 1249661003815 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1249661003816 Peptidase family U32; Region: Peptidase_U32; pfam01136 1249661003817 putative protease; Provisional; Region: PRK15447 1249661003818 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1249661003819 SCP-2 sterol transfer family; Region: SCP2; cl01225 1249661003820 DGC domain; Region: DGC; pfam08859 1249661003821 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1249661003822 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 1249661003823 FeS/SAM binding site; other site 1249661003824 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1249661003825 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1249661003826 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1249661003827 effector binding site; other site 1249661003828 active site 1249661003829 Zn binding site [ion binding]; other site 1249661003830 NnrS protein; Region: NnrS; pfam05940 1249661003831 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1249661003832 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1249661003833 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 1249661003834 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1249661003835 Di-iron ligands [ion binding]; other site 1249661003836 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1249661003837 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 1249661003838 ligand-binding site [chemical binding]; other site 1249661003839 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1249661003840 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1249661003841 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 1249661003842 DNA binding residues [nucleotide binding] 1249661003843 dimerization interface [polypeptide binding]; other site 1249661003844 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1249661003845 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1249661003846 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1249661003847 active sites [active] 1249661003848 tetramer interface [polypeptide binding]; other site 1249661003849 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1249661003850 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661003851 DNA-binding site [nucleotide binding]; DNA binding site 1249661003852 UTRA domain; Region: UTRA; pfam07702 1249661003853 urocanate hydratase; Provisional; Region: PRK05414 1249661003854 HutD; Region: HutD; pfam05962 1249661003855 imidazolonepropionase; Validated; Region: PRK09356 1249661003856 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 1249661003857 active site 1249661003858 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1249661003859 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 1249661003860 active site 1249661003861 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1249661003862 Peptidase C26; Region: Peptidase_C26; pfam07722 1249661003863 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1249661003864 catalytic triad [active] 1249661003865 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1249661003866 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1249661003867 putative aminotransferase; Validated; Region: PRK07480 1249661003868 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 1249661003869 inhibitor-cofactor binding pocket; inhibition site 1249661003870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661003871 catalytic residue [active] 1249661003872 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1249661003873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661003874 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 1249661003875 dimerization interface [polypeptide binding]; other site 1249661003876 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661003877 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661003878 active site 1249661003879 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661003880 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661003881 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661003882 putative substrate translocation pore; other site 1249661003883 oxidative damage protection protein; Provisional; Region: PRK05408 1249661003884 N-acetylglutamate synthase; Validated; Region: PRK05279 1249661003885 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 1249661003886 putative feedback inhibition sensing region; other site 1249661003887 putative nucleotide binding site [chemical binding]; other site 1249661003888 putative substrate binding site [chemical binding]; other site 1249661003889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661003890 Coenzyme A binding pocket [chemical binding]; other site 1249661003891 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1249661003892 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 1249661003893 ATP binding site [chemical binding]; other site 1249661003894 putative Mg++ binding site [ion binding]; other site 1249661003895 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 1249661003896 nucleotide binding region [chemical binding]; other site 1249661003897 ATP-binding site [chemical binding]; other site 1249661003898 Helicase associated domain (HA2); Region: HA2; pfam04408 1249661003899 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1249661003900 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1249661003901 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1249661003902 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1249661003903 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1249661003904 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1249661003905 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1249661003906 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1249661003907 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 1249661003908 putative MPT binding site; other site 1249661003909 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 1249661003910 active site residue [active] 1249661003911 glutamine synthetase; Provisional; Region: glnA; PRK09469 1249661003912 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1249661003913 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1249661003914 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1249661003915 PAS domain; Region: PAS; smart00091 1249661003916 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 1249661003917 dimer interface [polypeptide binding]; other site 1249661003918 phosphorylation site [posttranslational modification] 1249661003919 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 1249661003920 ATP binding site [chemical binding]; other site 1249661003921 Mg2+ binding site [ion binding]; other site 1249661003922 G-X-G motif; other site 1249661003923 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1249661003924 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 1249661003925 active site 1249661003926 phosphorylation site [posttranslational modification] 1249661003927 intermolecular recognition site; other site 1249661003928 dimerization interface [polypeptide binding]; other site 1249661003929 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 1249661003930 Walker A motif; other site 1249661003931 ATP binding site [chemical binding]; other site 1249661003932 Walker B motif; other site 1249661003933 arginine finger; other site 1249661003934 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661003935 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 1249661003936 putative catalytic site [active] 1249661003937 putative phosphate binding site [ion binding]; other site 1249661003938 active site 1249661003939 metal binding site A [ion binding]; metal-binding site 1249661003940 DNA binding site [nucleotide binding] 1249661003941 putative AP binding site [nucleotide binding]; other site 1249661003942 putative metal binding site B [ion binding]; other site 1249661003943 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1249661003944 transcriptional regulator NarL; Provisional; Region: PRK10651 1249661003945 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 1249661003946 active site 1249661003947 phosphorylation site [posttranslational modification] 1249661003948 intermolecular recognition site; other site 1249661003949 dimerization interface [polypeptide binding]; other site 1249661003950 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 1249661003951 DNA binding residues [nucleotide binding] 1249661003952 dimerization interface [polypeptide binding]; other site 1249661003953 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1249661003954 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1249661003955 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 1249661003956 dimerization interface [polypeptide binding]; other site 1249661003957 GAF domain; Region: GAF_3; pfam13492 1249661003958 Histidine kinase; Region: HisKA_3; pfam07730 1249661003959 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 1249661003960 ATP binding site [chemical binding]; other site 1249661003961 Mg2+ binding site [ion binding]; other site 1249661003962 G-X-G motif; other site 1249661003963 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1249661003964 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1249661003965 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1249661003966 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1249661003967 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 1249661003968 [4Fe-4S] binding site [ion binding]; other site 1249661003969 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 1249661003970 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 1249661003971 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 1249661003972 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 1249661003973 molybdopterin cofactor binding site; other site 1249661003974 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1249661003975 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661003976 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1249661003977 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661003978 putative substrate translocation pore; other site 1249661003979 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1249661003980 active site 1249661003981 DNA polymerase IV; Validated; Region: PRK02406 1249661003982 DNA binding site [nucleotide binding] 1249661003983 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1249661003984 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1249661003985 active site 1249661003986 Zn binding site [ion binding]; other site 1249661003987 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1249661003988 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1249661003989 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1249661003990 homodimer interface [polypeptide binding]; other site 1249661003991 NADP binding site [chemical binding]; other site 1249661003992 substrate binding site [chemical binding]; other site 1249661003993 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1249661003994 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 1249661003995 active site 1249661003996 phosphorylation site [posttranslational modification] 1249661003997 intermolecular recognition site; other site 1249661003998 dimerization interface [polypeptide binding]; other site 1249661003999 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 1249661004000 DNA binding residues [nucleotide binding] 1249661004001 dimerization interface [polypeptide binding]; other site 1249661004002 PAS domain S-box; Region: sensory_box; TIGR00229 1249661004003 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 1249661004004 putative active site [active] 1249661004005 heme pocket [chemical binding]; other site 1249661004006 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 1249661004007 dimer interface [polypeptide binding]; other site 1249661004008 phosphorylation site [posttranslational modification] 1249661004009 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 1249661004010 ATP binding site [chemical binding]; other site 1249661004011 Mg2+ binding site [ion binding]; other site 1249661004012 G-X-G motif; other site 1249661004013 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1249661004014 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 1249661004015 dimer interface [polypeptide binding]; other site 1249661004016 TPP-binding site [chemical binding]; other site 1249661004017 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1249661004018 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1249661004019 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1249661004020 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 1249661004021 E3 interaction surface; other site 1249661004022 lipoyl attachment site [posttranslational modification]; other site 1249661004023 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1249661004024 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661004025 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661004026 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1249661004027 Phasin protein; Region: Phasin_2; pfam09361 1249661004028 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1249661004029 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1249661004030 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249661004031 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661004032 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661004033 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1249661004034 Cysteine-rich domain; Region: CCG; pfam02754 1249661004035 Cysteine-rich domain; Region: CCG; pfam02754 1249661004036 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1249661004037 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1249661004038 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 1249661004039 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1249661004040 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1249661004041 active site 1249661004042 Predicted transcriptional regulator [Transcription]; Region: COG1959 1249661004043 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1249661004044 cysteine desulfurase; Provisional; Region: PRK14012 1249661004045 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1249661004046 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661004047 catalytic residue [active] 1249661004048 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1249661004049 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1249661004050 trimerization site [polypeptide binding]; other site 1249661004051 active site 1249661004052 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1249661004053 co-chaperone HscB; Provisional; Region: hscB; PRK03578 1249661004054 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 1249661004055 HSP70 interaction site [polypeptide binding]; other site 1249661004056 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1249661004057 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1249661004058 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1249661004059 nucleotide binding site [chemical binding]; other site 1249661004060 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1249661004061 SBD interface [polypeptide binding]; other site 1249661004062 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1249661004063 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 1249661004064 catalytic loop [active] 1249661004065 iron binding site [ion binding]; other site 1249661004066 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1249661004067 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1249661004068 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 1249661004069 dimer interface [polypeptide binding]; other site 1249661004070 putative anticodon binding site; other site 1249661004071 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 1249661004072 motif 1; other site 1249661004073 active site 1249661004074 motif 2; other site 1249661004075 motif 3; other site 1249661004076 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1249661004077 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1249661004078 RF-1 domain; Region: RF-1; pfam00472 1249661004079 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1249661004080 DHH family; Region: DHH; pfam01368 1249661004081 DHHA1 domain; Region: DHHA1; pfam02272 1249661004082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1249661004083 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1249661004084 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249661004085 FtsX-like permease family; Region: FtsX; pfam02687 1249661004086 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1249661004087 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1249661004088 Walker A/P-loop; other site 1249661004089 ATP binding site [chemical binding]; other site 1249661004090 Q-loop/lid; other site 1249661004091 ABC transporter signature motif; other site 1249661004092 Walker B; other site 1249661004093 D-loop; other site 1249661004094 H-loop/switch region; other site 1249661004095 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1249661004096 active site 1249661004097 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1249661004098 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1249661004099 Competence protein; Region: Competence; pfam03772 1249661004100 Competence protein; Region: Competence; pfam03772 1249661004101 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1249661004102 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1249661004103 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661004104 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 1249661004105 nucleophilic elbow; other site 1249661004106 catalytic triad; other site 1249661004107 CTP synthetase; Validated; Region: pyrG; PRK05380 1249661004108 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 1249661004109 Catalytic site [active] 1249661004110 active site 1249661004111 UTP binding site [chemical binding]; other site 1249661004112 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1249661004113 active site 1249661004114 putative oxyanion hole; other site 1249661004115 catalytic triad [active] 1249661004116 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1249661004117 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249661004118 enolase; Provisional; Region: eno; PRK00077 1249661004119 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 1249661004120 dimer interface [polypeptide binding]; other site 1249661004121 metal binding site [ion binding]; metal-binding site 1249661004122 substrate binding pocket [chemical binding]; other site 1249661004123 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1249661004124 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1249661004125 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1249661004126 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 1249661004127 dimerization interface [polypeptide binding]; other site 1249661004128 domain crossover interface; other site 1249661004129 redox-dependent activation switch; other site 1249661004130 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1249661004131 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 1249661004132 trimer interface [polypeptide binding]; other site 1249661004133 putative metal binding site [ion binding]; other site 1249661004134 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1249661004135 dinuclear metal binding motif [ion binding]; other site 1249661004136 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661004137 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1249661004138 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1249661004139 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1249661004140 active site 1249661004141 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1249661004142 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1249661004143 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 1249661004144 Peptidase family M50; Region: Peptidase_M50; pfam02163 1249661004145 active site 1249661004146 putative substrate binding region [chemical binding]; other site 1249661004147 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1249661004148 active site 1249661004149 HIGH motif; other site 1249661004150 dimer interface [polypeptide binding]; other site 1249661004151 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249661004152 active site 1249661004153 KMSKS motif; other site 1249661004154 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 1249661004155 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1249661004156 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1249661004157 dimer interface [polypeptide binding]; other site 1249661004158 active site 1249661004159 catalytic residue [active] 1249661004160 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1249661004161 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1249661004162 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1249661004163 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1249661004164 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1249661004165 MutS domain I; Region: MutS_I; pfam01624 1249661004166 MutS domain II; Region: MutS_II; pfam05188 1249661004167 MutS domain III; Region: MutS_III; pfam05192 1249661004168 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1249661004169 Walker A/P-loop; other site 1249661004170 ATP binding site [chemical binding]; other site 1249661004171 Q-loop/lid; other site 1249661004172 ABC transporter signature motif; other site 1249661004173 Walker B; other site 1249661004174 D-loop; other site 1249661004175 H-loop/switch region; other site 1249661004176 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1249661004177 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 1249661004178 active site 1249661004179 dimerization interface [polypeptide binding]; other site 1249661004180 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1249661004181 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1249661004182 serine O-acetyltransferase; Region: cysE; TIGR01172 1249661004183 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 1249661004184 trimer interface [polypeptide binding]; other site 1249661004185 active site 1249661004186 substrate binding site [chemical binding]; other site 1249661004187 CoA binding site [chemical binding]; other site 1249661004188 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249661004189 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1249661004190 putative active site [active] 1249661004191 putative metal binding site [ion binding]; other site 1249661004192 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 1249661004193 substrate binding site [chemical binding]; other site 1249661004194 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 1249661004195 substrate binding site [chemical binding]; other site 1249661004196 TPR repeat; Region: TPR_11; pfam13414 1249661004197 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 1249661004198 binding surface 1249661004199 TPR motif; other site 1249661004200 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1249661004201 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1249661004202 active site 1249661004203 HIGH motif; other site 1249661004204 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1249661004205 KMSKS motif; other site 1249661004206 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1249661004207 tRNA binding surface [nucleotide binding]; other site 1249661004208 anticodon binding site; other site 1249661004209 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1249661004210 endonuclease III; Region: ENDO3c; smart00478 1249661004211 minor groove reading motif; other site 1249661004212 helix-hairpin-helix signature motif; other site 1249661004213 substrate binding pocket [chemical binding]; other site 1249661004214 active site 1249661004215 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1249661004216 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1249661004217 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 1249661004218 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1249661004219 Ligand Binding Site [chemical binding]; other site 1249661004220 TilS substrate binding domain; Region: TilS; pfam09179 1249661004221 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1249661004222 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661004223 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661004224 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661004225 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661004226 aspartate kinase; Reviewed; Region: PRK06635 1249661004227 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 1249661004228 putative Mg ion binding site [ion binding]; other site 1249661004229 putative aspartate binding site [chemical binding]; other site 1249661004230 putative catalytic residues [active] 1249661004231 putative nucleotide binding site [chemical binding]; other site 1249661004232 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 1249661004233 putative allosteric regulatory site; other site 1249661004234 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 1249661004235 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1249661004236 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661004237 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661004238 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661004239 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 1249661004240 putative C-terminal domain interface [polypeptide binding]; other site 1249661004241 putative GSH binding site (G-site) [chemical binding]; other site 1249661004242 putative dimer interface [polypeptide binding]; other site 1249661004243 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 1249661004244 putative N-terminal domain interface [polypeptide binding]; other site 1249661004245 putative dimer interface [polypeptide binding]; other site 1249661004246 putative substrate binding pocket (H-site) [chemical binding]; other site 1249661004247 ELMO/CED-12 family; Region: ELMO_CED12; pfam04727 1249661004248 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1249661004249 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 1249661004250 non-specific DNA binding site [nucleotide binding]; other site 1249661004251 salt bridge; other site 1249661004252 sequence-specific DNA binding site [nucleotide binding]; other site 1249661004253 Phage-related protein [Function unknown]; Region: COG4679 1249661004254 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249661004255 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 1249661004256 NAD(P) binding site [chemical binding]; other site 1249661004257 catalytic residues [active] 1249661004258 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1249661004259 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661004260 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661004261 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1249661004262 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249661004263 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661004264 argininosuccinate lyase; Provisional; Region: PRK02186 1249661004265 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1249661004266 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 1249661004267 active site 1249661004268 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661004269 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1249661004270 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 1249661004271 molybdopterin cofactor binding site; other site 1249661004272 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 1249661004273 The MopB_CT_1 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_1; cd02782 1249661004274 putative molybdopterin cofactor binding site; other site 1249661004275 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 1249661004276 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1249661004277 NAD binding site [chemical binding]; other site 1249661004278 homotetramer interface [polypeptide binding]; other site 1249661004279 homodimer interface [polypeptide binding]; other site 1249661004280 substrate binding site [chemical binding]; other site 1249661004281 active site 1249661004282 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1249661004283 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 1249661004284 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1249661004285 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 1249661004286 dimer interface [polypeptide binding]; other site 1249661004287 conserved gate region; other site 1249661004288 putative PBP binding loops; other site 1249661004289 ABC-ATPase subunit interface; other site 1249661004290 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1249661004291 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 1249661004292 dimer interface [polypeptide binding]; other site 1249661004293 conserved gate region; other site 1249661004294 putative PBP binding loops; other site 1249661004295 ABC-ATPase subunit interface; other site 1249661004296 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1249661004297 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661004298 Walker A/P-loop; other site 1249661004299 ATP binding site [chemical binding]; other site 1249661004300 Q-loop/lid; other site 1249661004301 ABC transporter signature motif; other site 1249661004302 Walker B; other site 1249661004303 D-loop; other site 1249661004304 H-loop/switch region; other site 1249661004305 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661004306 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661004307 Walker A/P-loop; other site 1249661004308 ATP binding site [chemical binding]; other site 1249661004309 Q-loop/lid; other site 1249661004310 ABC transporter signature motif; other site 1249661004311 Walker B; other site 1249661004312 D-loop; other site 1249661004313 H-loop/switch region; other site 1249661004314 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661004315 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1249661004316 NlpC/P60 family; Region: NLPC_P60; pfam00877 1249661004317 hypothetical protein; Provisional; Region: PRK10279 1249661004318 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1249661004319 nucleophile elbow; other site 1249661004320 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1249661004321 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1249661004322 active site 1249661004323 HIGH motif; other site 1249661004324 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1249661004325 active site 1249661004326 KMSKS motif; other site 1249661004327 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661004328 Coenzyme A binding pocket [chemical binding]; other site 1249661004329 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1249661004330 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661004331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661004332 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661004333 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1249661004334 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 1249661004335 putative active site pocket [active] 1249661004336 dimerization interface [polypeptide binding]; other site 1249661004337 putative catalytic residue [active] 1249661004338 malate synthase A; Region: malate_syn_A; TIGR01344 1249661004339 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 1249661004340 active site 1249661004341 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1249661004342 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 1249661004343 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 1249661004344 motif II; other site 1249661004345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661004346 transcriptional activator TtdR; Provisional; Region: PRK09801 1249661004347 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 1249661004348 putative effector binding pocket; other site 1249661004349 dimerization interface [polypeptide binding]; other site 1249661004350 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 1249661004351 Ligand Binding Site [chemical binding]; other site 1249661004352 isocitrate lyase; Provisional; Region: PRK15063 1249661004353 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 1249661004354 tetramer interface [polypeptide binding]; other site 1249661004355 active site 1249661004356 Mg2+/Mn2+ binding site [ion binding]; other site 1249661004357 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 1249661004358 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1249661004359 ATP binding site [chemical binding]; other site 1249661004360 Mg++ binding site [ion binding]; other site 1249661004361 motif III; other site 1249661004362 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 1249661004363 nucleotide binding region [chemical binding]; other site 1249661004364 ATP-binding site [chemical binding]; other site 1249661004365 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 1249661004366 acyl-CoA binding pocket [chemical binding]; other site 1249661004367 CoA binding site [chemical binding]; other site 1249661004368 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1249661004369 Glycoprotease family; Region: Peptidase_M22; pfam00814 1249661004370 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1249661004371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661004372 Coenzyme A binding pocket [chemical binding]; other site 1249661004373 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1249661004374 Fe-S cluster binding site [ion binding]; other site 1249661004375 active site 1249661004376 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1249661004377 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 1249661004378 dimer interface [polypeptide binding]; other site 1249661004379 substrate binding site [chemical binding]; other site 1249661004380 ATP binding site [chemical binding]; other site 1249661004381 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1249661004382 alanine racemase; Reviewed; Region: dadX; PRK03646 1249661004383 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1249661004384 active site 1249661004385 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249661004386 substrate binding site [chemical binding]; other site 1249661004387 catalytic residues [active] 1249661004388 dimer interface [polypeptide binding]; other site 1249661004389 DNA repair protein RadA; Provisional; Region: PRK11823 1249661004390 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 1249661004391 Walker A motif/ATP binding site; other site 1249661004392 ATP binding site [chemical binding]; other site 1249661004393 Walker B motif; other site 1249661004394 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1249661004395 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 1249661004396 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1249661004397 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249661004398 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249661004399 ABC transporter; Region: ABC_tran_2; pfam12848 1249661004400 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249661004401 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 1249661004402 catalytic residues [active] 1249661004403 dimer interface [polypeptide binding]; other site 1249661004404 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1249661004405 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1249661004406 putative active site [active] 1249661004407 catalytic site [active] 1249661004408 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 1249661004409 putative active site [active] 1249661004410 catalytic site [active] 1249661004411 HemK family putative methylases; Region: hemK_fam; TIGR00536 1249661004412 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 1249661004413 S-adenosylmethionine binding site [chemical binding]; other site 1249661004414 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1249661004415 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1249661004416 metal binding site [ion binding]; metal-binding site 1249661004417 dimer interface [polypeptide binding]; other site 1249661004418 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 1249661004419 ArsC family; Region: ArsC; pfam03960 1249661004420 putative catalytic residues [active] 1249661004421 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1249661004422 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 1249661004423 trimer interface [polypeptide binding]; other site 1249661004424 active site 1249661004425 substrate binding site [chemical binding]; other site 1249661004426 CoA binding site [chemical binding]; other site 1249661004427 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1249661004428 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 1249661004429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661004430 homodimer interface [polypeptide binding]; other site 1249661004431 catalytic residue [active] 1249661004432 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249661004433 EamA-like transporter family; Region: EamA; pfam00892 1249661004434 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1249661004435 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1249661004436 Walker A/P-loop; other site 1249661004437 ATP binding site [chemical binding]; other site 1249661004438 Q-loop/lid; other site 1249661004439 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1249661004440 Q-loop/lid; other site 1249661004441 ABC transporter signature motif; other site 1249661004442 Walker B; other site 1249661004443 D-loop; other site 1249661004444 H-loop/switch region; other site 1249661004445 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 1249661004446 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1249661004447 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 1249661004448 nucleotide binding pocket [chemical binding]; other site 1249661004449 K-X-D-G motif; other site 1249661004450 catalytic site [active] 1249661004451 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1249661004452 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1249661004453 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 1249661004454 Dimer interface [polypeptide binding]; other site 1249661004455 BRCT sequence motif; other site 1249661004456 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 1249661004457 active site 1249661004458 catalytic residues [active] 1249661004459 metal binding site [ion binding]; metal-binding site 1249661004460 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1249661004461 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 1249661004462 RNA binding surface [nucleotide binding]; other site 1249661004463 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1249661004464 active site 1249661004465 PII uridylyl-transferase; Provisional; Region: PRK03059 1249661004466 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1249661004467 metal binding triad; other site 1249661004468 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1249661004469 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249661004470 Zn2+ binding site [ion binding]; other site 1249661004471 Mg2+ binding site [ion binding]; other site 1249661004472 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 1249661004473 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 1249661004474 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 1249661004475 active site 1249661004476 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 1249661004477 rRNA interaction site [nucleotide binding]; other site 1249661004478 S8 interaction site; other site 1249661004479 putative laminin-1 binding site; other site 1249661004480 elongation factor Ts; Provisional; Region: tsf; PRK09377 1249661004481 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 1249661004482 Elongation factor TS; Region: EF_TS; pfam00889 1249661004483 Elongation factor TS; Region: EF_TS; pfam00889 1249661004484 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 1249661004485 putative nucleotide binding site [chemical binding]; other site 1249661004486 uridine monophosphate binding site [chemical binding]; other site 1249661004487 homohexameric interface [polypeptide binding]; other site 1249661004488 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1249661004489 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 1249661004490 hinge region; other site 1249661004491 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1249661004492 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1249661004493 catalytic residue [active] 1249661004494 putative FPP diphosphate binding site; other site 1249661004495 putative FPP binding hydrophobic cleft; other site 1249661004496 dimer interface [polypeptide binding]; other site 1249661004497 putative IPP diphosphate binding site; other site 1249661004498 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1249661004499 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1249661004500 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1249661004501 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 1249661004502 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1249661004503 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1249661004504 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1249661004505 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 1249661004506 active site 1249661004507 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1249661004508 protein binding site [polypeptide binding]; other site 1249661004509 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 1249661004510 putative substrate binding region [chemical binding]; other site 1249661004511 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1249661004512 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249661004513 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249661004514 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249661004515 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249661004516 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249661004517 Surface antigen; Region: Bac_surface_Ag; pfam01103 1249661004518 periplasmic chaperone; Provisional; Region: PRK10780 1249661004519 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1249661004520 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1249661004521 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1249661004522 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 1249661004523 trimer interface [polypeptide binding]; other site 1249661004524 active site 1249661004525 UDP-GlcNAc binding site [chemical binding]; other site 1249661004526 lipid binding site [chemical binding]; lipid-binding site 1249661004527 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 1249661004528 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1249661004529 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 1249661004530 active site 1249661004531 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1249661004532 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1249661004533 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1249661004534 RNA/DNA hybrid binding site [nucleotide binding]; other site 1249661004535 active site 1249661004536 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1249661004537 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1249661004538 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1249661004539 Phytochelatin synthase; Region: Phytochelatin; pfam05023 1249661004540 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1249661004541 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1249661004542 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1249661004543 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1249661004544 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1249661004545 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 1249661004546 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 1249661004547 SmpB-tmRNA interface; other site 1249661004548 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1249661004549 putative coenzyme Q binding site [chemical binding]; other site 1249661004550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 1249661004551 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1249661004552 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1249661004553 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1249661004554 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1249661004555 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1249661004556 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 1249661004557 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 1249661004558 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 1249661004559 active site 1249661004560 GMP synthase; Reviewed; Region: guaA; PRK00074 1249661004561 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1249661004562 AMP/PPi binding site [chemical binding]; other site 1249661004563 candidate oxyanion hole; other site 1249661004564 catalytic triad [active] 1249661004565 potential glutamine specificity residues [chemical binding]; other site 1249661004566 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 1249661004567 ATP Binding subdomain [chemical binding]; other site 1249661004568 Ligand Binding sites [chemical binding]; other site 1249661004569 Dimerization subdomain; other site 1249661004570 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 1249661004571 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 1249661004572 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661004573 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661004574 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661004575 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 1249661004576 putative C-terminal domain interface [polypeptide binding]; other site 1249661004577 putative GSH binding site (G-site) [chemical binding]; other site 1249661004578 putative dimer interface [polypeptide binding]; other site 1249661004579 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 1249661004580 putative N-terminal domain interface [polypeptide binding]; other site 1249661004581 putative dimer interface [polypeptide binding]; other site 1249661004582 putative substrate binding pocket (H-site) [chemical binding]; other site 1249661004583 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 1249661004584 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1249661004585 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1249661004586 conserved cys residue [active] 1249661004587 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661004588 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 1249661004589 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 1249661004590 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 1249661004591 nucleoside/Zn binding site; other site 1249661004592 dimer interface [polypeptide binding]; other site 1249661004593 catalytic motif [active] 1249661004594 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1249661004595 dimer interface [polypeptide binding]; other site 1249661004596 catalytic triad [active] 1249661004597 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1249661004598 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661004599 DNA-binding site [nucleotide binding]; DNA binding site 1249661004600 FCD domain; Region: FCD; pfam07729 1249661004601 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1249661004602 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1249661004603 Na binding site [ion binding]; other site 1249661004604 putative substrate binding site [chemical binding]; other site 1249661004605 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1249661004606 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1249661004607 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1249661004608 active site 1249661004609 catalytic site [active] 1249661004610 tetramer interface [polypeptide binding]; other site 1249661004611 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 1249661004612 allantoicase; Provisional; Region: PRK13257 1249661004613 Allantoicase repeat; Region: Allantoicase; pfam03561 1249661004614 Allantoicase repeat; Region: Allantoicase; pfam03561 1249661004615 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1249661004616 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1249661004617 Predicted membrane protein [Function unknown]; Region: COG3748 1249661004618 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1249661004619 Cytochrome c; Region: Cytochrom_C; pfam00034 1249661004620 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 1249661004621 active site 1249661004622 homotetramer interface [polypeptide binding]; other site 1249661004623 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1249661004624 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 1249661004625 active site 1249661004626 putative substrate binding pocket [chemical binding]; other site 1249661004627 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661004628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661004629 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 1249661004630 putative substrate binding pocket [chemical binding]; other site 1249661004631 putative dimerization interface [polypeptide binding]; other site 1249661004632 Dodecin; Region: Dodecin; pfam07311 1249661004633 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1249661004634 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249661004635 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1249661004636 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1249661004637 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1249661004638 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 1249661004639 TPR motif; other site 1249661004640 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1249661004641 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1249661004642 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1249661004643 Transglycosylase; Region: Transgly; pfam00912 1249661004644 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249661004645 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 1249661004646 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1249661004647 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 1249661004648 tetramer interface [polypeptide binding]; other site 1249661004649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661004650 catalytic residue [active] 1249661004651 acetylornithine deacetylase; Provisional; Region: PRK07522 1249661004652 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1249661004653 metal binding site [ion binding]; metal-binding site 1249661004654 putative dimer interface [polypeptide binding]; other site 1249661004655 enoyl-CoA hydratase; Provisional; Region: PRK06495 1249661004656 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1249661004657 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1249661004658 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 1249661004659 ATP binding site [chemical binding]; other site 1249661004660 putative Mg++ binding site [ion binding]; other site 1249661004661 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 1249661004662 nucleotide binding region [chemical binding]; other site 1249661004663 ATP-binding site [chemical binding]; other site 1249661004664 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1249661004665 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1249661004666 substrate binding site; other site 1249661004667 dimer interface; other site 1249661004668 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 1249661004669 homotrimer interaction site [polypeptide binding]; other site 1249661004670 zinc binding site [ion binding]; other site 1249661004671 CDP-binding sites; other site 1249661004672 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1249661004673 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1249661004674 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1249661004675 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 1249661004676 dimer interface [polypeptide binding]; other site 1249661004677 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1249661004678 catalytic triad [active] 1249661004679 peroxidatic and resolving cysteines [active] 1249661004680 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1249661004681 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 1249661004682 dimer interface [polypeptide binding]; other site 1249661004683 phosphorylation site [posttranslational modification] 1249661004684 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 1249661004685 ATP binding site [chemical binding]; other site 1249661004686 Mg2+ binding site [ion binding]; other site 1249661004687 G-X-G motif; other site 1249661004688 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1249661004689 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 1249661004690 active site 1249661004691 phosphorylation site [posttranslational modification] 1249661004692 intermolecular recognition site; other site 1249661004693 dimerization interface [polypeptide binding]; other site 1249661004694 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 1249661004695 DNA binding site [nucleotide binding] 1249661004696 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 1249661004697 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1249661004698 active site lid residues [active] 1249661004699 substrate binding pocket [chemical binding]; other site 1249661004700 catalytic residues [active] 1249661004701 substrate-Mg2+ binding site; other site 1249661004702 aspartate-rich region 1; other site 1249661004703 aspartate-rich region 2; other site 1249661004704 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 1249661004705 active site 1249661004706 DNA binding site [nucleotide binding] 1249661004707 Int/Topo IB signature motif; other site 1249661004708 Phage-related protein, tail component [Function unknown]; Region: COG4733 1249661004709 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1249661004710 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1249661004711 Phage-related protein, tail component [Function unknown]; Region: COG4723 1249661004712 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1249661004713 MPN+ (JAMM) motif; other site 1249661004714 Zinc-binding site [ion binding]; other site 1249661004715 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1249661004716 NlpC/P60 family; Region: NLPC_P60; cl17555 1249661004717 Phage minor tail protein L; Region: Phage_tail_L; cl01908 1249661004718 Phage minor tail protein; Region: Phage_min_tail; cl01940 1249661004719 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1249661004720 Phage-related minor tail protein [Function unknown]; Region: COG5281 1249661004721 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1249661004722 Phage major tail protein 2; Region: Phage_tail_2; cl11463 1249661004723 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1249661004724 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1249661004725 oligomerization interface [polypeptide binding]; other site 1249661004726 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1249661004727 Phage portal protein; Region: Phage_portal; pfam04860 1249661004728 Phage capsid family; Region: Phage_capsid; pfam05065 1249661004729 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1249661004730 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249661004731 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 1249661004732 Catalytic site [active] 1249661004733 Prophage antirepressor [Transcription]; Region: COG3617 1249661004734 BRO family, N-terminal domain; Region: Bro-N; smart01040 1249661004735 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1249661004736 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1249661004737 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1249661004738 active site 1249661004739 metal binding site [ion binding]; metal-binding site 1249661004740 interdomain interaction site; other site 1249661004741 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 1249661004742 Walker A motif; other site 1249661004743 ATP binding site [chemical binding]; other site 1249661004744 Walker B motif; other site 1249661004745 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 1249661004746 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1249661004747 DNA binding site [nucleotide binding] 1249661004748 ATP-dependent DNA ligase; Region: PHA00454 1249661004749 active site 1249661004750 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 1249661004751 DNA binding site [nucleotide binding] 1249661004752 HD domain; Region: HD_3; cl17350 1249661004753 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 1249661004754 active site 1249661004755 DNA binding site [nucleotide binding] 1249661004756 catalytic site [active] 1249661004757 hypothetical protein; Region: PHA02030 1249661004758 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 1249661004759 DNA binding site [nucleotide binding] 1249661004760 metal binding site [ion binding]; metal-binding site 1249661004761 Recombination endonuclease VII; Region: Endonuclease_7; pfam02945 1249661004762 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1249661004763 active site 1249661004764 substrate binding site [chemical binding]; other site 1249661004765 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1249661004766 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; cl17512 1249661004767 beta-clamp/clamp loader binding surface; other site 1249661004768 DNA-dependent RNA polymerase; Region: RNA_pol; pfam00940 1249661004769 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1249661004770 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1249661004771 MEKHLA domain; Region: MEKHLA; pfam08670 1249661004772 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1249661004773 PLD-like domain; Region: PLDc_2; pfam13091 1249661004774 putative active site [active] 1249661004775 catalytic site [active] 1249661004776 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 1249661004777 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1249661004778 active site 1249661004779 Zn binding site [ion binding]; other site 1249661004780 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661004781 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 1249661004782 trimer interface [polypeptide binding]; other site 1249661004783 eyelet of channel; other site 1249661004784 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661004785 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 1249661004786 dimerization interface [polypeptide binding]; other site 1249661004787 DNA binding residues [nucleotide binding] 1249661004788 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1249661004789 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1249661004790 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1249661004791 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1249661004792 MarR family; Region: MarR_2; pfam12802 1249661004793 MarR family; Region: MarR_2; cl17246 1249661004794 Glycerate kinase family; Region: Gly_kinase; cl00841 1249661004795 trigger factor; Provisional; Region: tig; PRK01490 1249661004796 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249661004797 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1249661004798 Clp protease; Region: CLP_protease; pfam00574 1249661004799 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1249661004800 oligomer interface [polypeptide binding]; other site 1249661004801 active site residues [active] 1249661004802 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1249661004803 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1249661004804 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 1249661004805 Walker A motif; other site 1249661004806 ATP binding site [chemical binding]; other site 1249661004807 Walker B motif; other site 1249661004808 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1249661004809 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1249661004810 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1249661004811 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 1249661004812 Walker A motif; other site 1249661004813 ATP binding site [chemical binding]; other site 1249661004814 Walker B motif; other site 1249661004815 arginine finger; other site 1249661004816 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1249661004817 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; cl00250 1249661004818 30S subunit binding site; other site 1249661004819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 1249661004820 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1249661004821 SurA N-terminal domain; Region: SurA_N_3; cl07813 1249661004822 periplasmic folding chaperone; Provisional; Region: PRK10788 1249661004823 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249661004824 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 1249661004825 active site 1249661004826 catalytic triad [active] 1249661004827 oxyanion hole [active] 1249661004828 switch loop; other site 1249661004829 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1249661004830 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1249661004831 Walker A/P-loop; other site 1249661004832 ATP binding site [chemical binding]; other site 1249661004833 Q-loop/lid; other site 1249661004834 ABC transporter signature motif; other site 1249661004835 Walker B; other site 1249661004836 D-loop; other site 1249661004837 H-loop/switch region; other site 1249661004838 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1249661004839 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 1249661004840 active site 1249661004841 dimer interface [polypeptide binding]; other site 1249661004842 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 1249661004843 dimer interface [polypeptide binding]; other site 1249661004844 active site 1249661004845 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1249661004846 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 1249661004847 putative substrate binding site [chemical binding]; other site 1249661004848 putative ATP binding site [chemical binding]; other site 1249661004849 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1249661004850 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1249661004851 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 1249661004852 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 1249661004853 dimerization interface [polypeptide binding]; other site 1249661004854 ATP binding site [chemical binding]; other site 1249661004855 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 1249661004856 dimerization interface [polypeptide binding]; other site 1249661004857 ATP binding site [chemical binding]; other site 1249661004858 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1249661004859 putative active site [active] 1249661004860 catalytic triad [active] 1249661004861 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1249661004862 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249661004863 BolA-like protein; Region: BolA; pfam01722 1249661004864 intracellular septation protein A; Reviewed; Region: PRK00259 1249661004865 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1249661004866 SelR domain; Region: SelR; pfam01641 1249661004867 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1249661004868 hypothetical protein; Validated; Region: PRK00029 1249661004869 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1249661004870 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1249661004871 dimer interface [polypeptide binding]; other site 1249661004872 acyl-activating enzyme (AAE) consensus motif; other site 1249661004873 putative active site [active] 1249661004874 AMP binding site [chemical binding]; other site 1249661004875 putative CoA binding site [chemical binding]; other site 1249661004876 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 1249661004877 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1249661004878 substrate binding site [chemical binding]; other site 1249661004879 oxyanion hole (OAH) forming residues; other site 1249661004880 trimer interface [polypeptide binding]; other site 1249661004881 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1249661004882 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1249661004883 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1249661004884 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1249661004885 catalytic triad [active] 1249661004886 metal binding site [ion binding]; metal-binding site 1249661004887 conserved cis-peptide bond; other site 1249661004888 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1249661004889 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 1249661004890 dimer interface [polypeptide binding]; other site 1249661004891 active site 1249661004892 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1249661004893 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 1249661004894 CoenzymeA binding site [chemical binding]; other site 1249661004895 subunit interaction site [polypeptide binding]; other site 1249661004896 PHB binding site; other site 1249661004897 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1249661004898 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1249661004899 NAD(P) binding site [chemical binding]; other site 1249661004900 substrate binding site [chemical binding]; other site 1249661004901 dimer interface [polypeptide binding]; other site 1249661004902 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 1249661004903 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1249661004904 substrate binding pocket [chemical binding]; other site 1249661004905 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249661004906 NRDE protein; Region: NRDE; cl01315 1249661004907 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1249661004908 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1249661004909 YceG-like family; Region: YceG; pfam02618 1249661004910 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1249661004911 dimerization interface [polypeptide binding]; other site 1249661004912 thymidylate kinase; Validated; Region: tmk; PRK00698 1249661004913 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 1249661004914 TMP-binding site; other site 1249661004915 ATP-binding site [chemical binding]; other site 1249661004916 DNA polymerase III subunit delta'; Validated; Region: PRK06964 1249661004917 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1249661004918 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1249661004919 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661004920 Coenzyme A binding pocket [chemical binding]; other site 1249661004921 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1249661004922 active site 1249661004923 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1249661004924 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 1249661004925 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1249661004926 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1249661004927 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1249661004928 Predicted ATPase [General function prediction only]; Region: COG4637 1249661004929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661004930 Walker A/P-loop; other site 1249661004931 ATP binding site [chemical binding]; other site 1249661004932 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 1249661004933 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661004934 putative ADP-binding pocket [chemical binding]; other site 1249661004935 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1249661004936 Domain of unknown function DUF221; Region: DUF221; pfam02714 1249661004937 hypothetical protein; Provisional; Region: PRK11505 1249661004938 psiF repeat; Region: PsiF_repeat; pfam07769 1249661004939 psiF repeat; Region: PsiF_repeat; pfam07769 1249661004940 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1249661004941 active site 1249661004942 homodimer interface [polypeptide binding]; other site 1249661004943 homotetramer interface [polypeptide binding]; other site 1249661004944 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1249661004945 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249661004946 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1249661004947 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249661004948 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1249661004949 glyoxylate carboligase; Provisional; Region: PRK11269 1249661004950 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249661004951 PYR/PP interface [polypeptide binding]; other site 1249661004952 dimer interface [polypeptide binding]; other site 1249661004953 TPP binding site [chemical binding]; other site 1249661004954 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249661004955 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 1249661004956 TPP-binding site [chemical binding]; other site 1249661004957 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661004958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661004959 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 1249661004960 putative effector binding pocket; other site 1249661004961 dimerization interface [polypeptide binding]; other site 1249661004962 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1249661004963 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1249661004964 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249661004965 active site 1249661004966 metal binding site [ion binding]; metal-binding site 1249661004967 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1249661004968 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661004969 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 1249661004970 DNA binding residues [nucleotide binding] 1249661004971 Putative zinc-finger; Region: zf-HC2; pfam13490 1249661004972 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1249661004973 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1249661004974 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1249661004975 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1249661004976 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1249661004977 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1249661004978 replicative DNA helicase; Provisional; Region: PRK07004 1249661004979 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1249661004980 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 1249661004981 Walker A motif; other site 1249661004982 ATP binding site [chemical binding]; other site 1249661004983 Walker B motif; other site 1249661004984 DNA binding loops [nucleotide binding] 1249661004985 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1249661004986 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1249661004987 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1249661004988 NlpC/P60 family; Region: NLPC_P60; pfam00877 1249661004989 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1249661004990 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1249661004991 putative active site [active] 1249661004992 PhoH-like protein; Region: PhoH; pfam02562 1249661004993 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 1249661004994 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661004995 catalytic triad [active] 1249661004996 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1249661004997 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 1249661004998 putative active site [active] 1249661004999 putative catalytic site [active] 1249661005000 putative Zn binding site [ion binding]; other site 1249661005001 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 1249661005002 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1249661005003 NAD binding site [chemical binding]; other site 1249661005004 substrate binding site [chemical binding]; other site 1249661005005 active site 1249661005006 putative formyltransferase; Provisional; Region: PRK06988 1249661005007 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1249661005008 active site 1249661005009 substrate binding site [chemical binding]; other site 1249661005010 cosubstrate binding site; other site 1249661005011 catalytic site [active] 1249661005012 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 1249661005013 active site 1249661005014 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1249661005015 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1249661005016 Ligand binding site; other site 1249661005017 Putative Catalytic site; other site 1249661005018 DXD motif; other site 1249661005019 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1249661005020 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 1249661005021 inhibitor-cofactor binding pocket; inhibition site 1249661005022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661005023 catalytic residue [active] 1249661005024 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 1249661005025 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1249661005026 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1249661005027 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 1249661005028 aminotransferase AlaT; Validated; Region: PRK09265 1249661005029 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 1249661005030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661005031 homodimer interface [polypeptide binding]; other site 1249661005032 catalytic residue [active] 1249661005033 homoserine dehydrogenase; Provisional; Region: PRK06349 1249661005034 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1249661005035 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1249661005036 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 1249661005037 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1249661005038 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 1249661005039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661005040 catalytic residue [active] 1249661005041 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 1249661005042 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1249661005043 dimer interface [polypeptide binding]; other site 1249661005044 putative functional site; other site 1249661005045 putative MPT binding site; other site 1249661005046 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1249661005047 MoaE interaction surface [polypeptide binding]; other site 1249661005048 MoeB interaction surface [polypeptide binding]; other site 1249661005049 thiocarboxylated glycine; other site 1249661005050 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 1249661005051 MoaE homodimer interface [polypeptide binding]; other site 1249661005052 MoaD interaction [polypeptide binding]; other site 1249661005053 active site residues [active] 1249661005054 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 1249661005055 apolar tunnel; other site 1249661005056 heme binding site [chemical binding]; other site 1249661005057 dimerization interface [polypeptide binding]; other site 1249661005058 Transcriptional regulator; Region: Rrf2; cl17282 1249661005059 Rrf2 family protein; Region: rrf2_super; TIGR00738 1249661005060 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1249661005061 Clp amino terminal domain; Region: Clp_N; pfam02861 1249661005062 Clp amino terminal domain; Region: Clp_N; pfam02861 1249661005063 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 1249661005064 Walker A motif; other site 1249661005065 ATP binding site [chemical binding]; other site 1249661005066 Walker B motif; other site 1249661005067 arginine finger; other site 1249661005068 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 1249661005069 Walker A motif; other site 1249661005070 ATP binding site [chemical binding]; other site 1249661005071 Walker B motif; other site 1249661005072 arginine finger; other site 1249661005073 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1249661005074 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1249661005075 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1249661005076 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1249661005077 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1249661005078 DNA binding residues [nucleotide binding] 1249661005079 putative dimer interface [polypeptide binding]; other site 1249661005080 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1249661005081 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1249661005082 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 1249661005083 Walker A motif; other site 1249661005084 ATP binding site [chemical binding]; other site 1249661005085 Walker B motif; other site 1249661005086 arginine finger; other site 1249661005087 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661005088 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1249661005089 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1249661005090 classical (c) SDRs; Region: SDR_c; cd05233 1249661005091 NAD(P) binding site [chemical binding]; other site 1249661005092 active site 1249661005093 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1249661005094 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 1249661005095 tetramer interface [polypeptide binding]; other site 1249661005096 TPP-binding site [chemical binding]; other site 1249661005097 heterodimer interface [polypeptide binding]; other site 1249661005098 phosphorylation loop region [posttranslational modification] 1249661005099 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1249661005100 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 1249661005101 alpha subunit interface [polypeptide binding]; other site 1249661005102 TPP binding site [chemical binding]; other site 1249661005103 heterodimer interface [polypeptide binding]; other site 1249661005104 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1249661005105 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1249661005106 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 1249661005107 E3 interaction surface; other site 1249661005108 lipoyl attachment site [posttranslational modification]; other site 1249661005109 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1249661005110 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1249661005111 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1249661005112 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1249661005113 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1249661005114 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661005115 putative substrate translocation pore; other site 1249661005116 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1249661005117 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1249661005118 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1249661005119 DNA binding residues [nucleotide binding] 1249661005120 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1249661005121 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1249661005122 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 1249661005123 RNA binding site [nucleotide binding]; other site 1249661005124 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 1249661005125 multimer interface [polypeptide binding]; other site 1249661005126 Walker A motif; other site 1249661005127 ATP binding site [chemical binding]; other site 1249661005128 Walker B motif; other site 1249661005129 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 1249661005130 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661005131 catalytic residues [active] 1249661005132 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1249661005133 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 1249661005134 Walker A motif; other site 1249661005135 ATP binding site [chemical binding]; other site 1249661005136 Walker B motif; other site 1249661005137 arginine finger; other site 1249661005138 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1249661005139 hypothetical protein; Validated; Region: PRK00153 1249661005140 recombination protein RecR; Reviewed; Region: recR; PRK00076 1249661005141 RecR protein; Region: RecR; pfam02132 1249661005142 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 1249661005143 putative active site [active] 1249661005144 putative metal-binding site [ion binding]; other site 1249661005145 tetramer interface [polypeptide binding]; other site 1249661005146 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661005147 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661005148 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1249661005149 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1249661005150 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 1249661005151 S-adenosylmethionine binding site [chemical binding]; other site 1249661005152 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249661005153 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249661005154 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 1249661005155 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1249661005156 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661005157 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 1249661005158 DNA binding residues [nucleotide binding] 1249661005159 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1249661005160 active site 1249661005161 catalytic site [active] 1249661005162 substrate binding site [chemical binding]; other site 1249661005163 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1249661005164 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1249661005165 putative catalytic site [active] 1249661005166 putative metal binding site [ion binding]; other site 1249661005167 putative phosphate binding site [ion binding]; other site 1249661005168 putative catalytic site [active] 1249661005169 putative phosphate binding site [ion binding]; other site 1249661005170 putative metal binding site [ion binding]; other site 1249661005171 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1249661005172 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 1249661005173 S-adenosylmethionine binding site [chemical binding]; other site 1249661005174 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1249661005175 YccA-like proteins; Region: YccA_like; cd10433 1249661005176 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 1249661005177 active site 1249661005178 multimer interface [polypeptide binding]; other site 1249661005179 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1249661005180 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 1249661005181 FeS/SAM binding site; other site 1249661005182 Helix-turn-helix domain; Region: HTH_25; pfam13413 1249661005183 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1249661005184 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1249661005185 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1249661005186 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1249661005187 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1249661005188 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 1249661005189 dimer interface [polypeptide binding]; other site 1249661005190 motif 1; other site 1249661005191 active site 1249661005192 motif 2; other site 1249661005193 motif 3; other site 1249661005194 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 1249661005195 anticodon binding site; other site 1249661005196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1249661005197 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1249661005198 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1249661005199 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1249661005200 Trp docking motif [polypeptide binding]; other site 1249661005201 active site 1249661005202 GTP-binding protein Der; Reviewed; Region: PRK00093 1249661005203 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1249661005204 G1 box; other site 1249661005205 GTP/Mg2+ binding site [chemical binding]; other site 1249661005206 Switch I region; other site 1249661005207 G2 box; other site 1249661005208 Switch II region; other site 1249661005209 G3 box; other site 1249661005210 G4 box; other site 1249661005211 G5 box; other site 1249661005212 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1249661005213 G1 box; other site 1249661005214 GTP/Mg2+ binding site [chemical binding]; other site 1249661005215 Switch I region; other site 1249661005216 G2 box; other site 1249661005217 G3 box; other site 1249661005218 Switch II region; other site 1249661005219 G4 box; other site 1249661005220 G5 box; other site 1249661005221 bacterial Hfq-like; Region: Hfq; cd01716 1249661005222 hexamer interface [polypeptide binding]; other site 1249661005223 Sm1 motif; other site 1249661005224 RNA binding site [nucleotide binding]; other site 1249661005225 Sm2 motif; other site 1249661005226 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1249661005227 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1249661005228 HflX GTPase family; Region: HflX; cd01878 1249661005229 G1 box; other site 1249661005230 GTP/Mg2+ binding site [chemical binding]; other site 1249661005231 Switch I region; other site 1249661005232 G2 box; other site 1249661005233 G3 box; other site 1249661005234 Switch II region; other site 1249661005235 G4 box; other site 1249661005236 G5 box; other site 1249661005237 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1249661005238 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 1249661005239 HflK protein; Region: hflK; TIGR01933 1249661005240 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1249661005241 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 1249661005242 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1249661005243 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 1249661005244 dimer interface [polypeptide binding]; other site 1249661005245 motif 1; other site 1249661005246 active site 1249661005247 motif 2; other site 1249661005248 motif 3; other site 1249661005249 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1249661005250 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 1249661005251 GDP-binding site [chemical binding]; other site 1249661005252 ACT binding site; other site 1249661005253 IMP binding site; other site 1249661005254 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1249661005255 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661005256 active site 1249661005257 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1249661005258 potassium uptake protein; Region: kup; TIGR00794 1249661005259 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1249661005260 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1249661005261 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1249661005262 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 1249661005263 RNA binding site [nucleotide binding]; other site 1249661005264 Protein of unknown function (DUF465); Region: DUF465; pfam04325 1249661005265 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1249661005266 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1249661005267 DEAD_2; Region: DEAD_2; pfam06733 1249661005268 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1249661005269 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1249661005270 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1249661005271 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 1249661005272 RNA binding surface [nucleotide binding]; other site 1249661005273 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249661005274 active site 1249661005275 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1249661005276 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1249661005277 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1249661005278 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1249661005279 putative acyltransferase; Provisional; Region: PRK05790 1249661005280 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 1249661005281 dimer interface [polypeptide binding]; other site 1249661005282 active site 1249661005283 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 1249661005284 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1249661005285 NAD(P) binding site [chemical binding]; other site 1249661005286 homotetramer interface [polypeptide binding]; other site 1249661005287 homodimer interface [polypeptide binding]; other site 1249661005288 active site 1249661005289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 1249661005290 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1249661005291 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1249661005292 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1249661005293 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1249661005294 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 1249661005295 FeS/SAM binding site; other site 1249661005296 TRAM domain; Region: TRAM; cl01282 1249661005297 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661005298 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 1249661005299 substrate binding site [chemical binding]; other site 1249661005300 ATP binding site [chemical binding]; other site 1249661005301 beta-ketothiolase; Provisional; Region: PRK09051 1249661005302 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 1249661005303 dimer interface [polypeptide binding]; other site 1249661005304 active site 1249661005305 cystathionine beta-lyase; Provisional; Region: PRK07050 1249661005306 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 1249661005307 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661005308 catalytic residue [active] 1249661005309 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 1249661005310 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1249661005311 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 1249661005312 motif II; other site 1249661005313 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1249661005314 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1249661005315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661005316 Walker A/P-loop; other site 1249661005317 ATP binding site [chemical binding]; other site 1249661005318 Q-loop/lid; other site 1249661005319 ABC transporter signature motif; other site 1249661005320 Walker B; other site 1249661005321 D-loop; other site 1249661005322 H-loop/switch region; other site 1249661005323 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1249661005324 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1249661005325 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1249661005326 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249661005327 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249661005328 ABC transporter; Region: ABC_tran_2; pfam12848 1249661005329 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249661005330 Burkholderia Lethal Factor 1; Region: BPSL1549; cd12812 1249661005331 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1249661005332 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249661005333 NAD binding site [chemical binding]; other site 1249661005334 catalytic residues [active] 1249661005335 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1249661005336 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 1249661005337 FMN binding site [chemical binding]; other site 1249661005338 substrate binding site [chemical binding]; other site 1249661005339 putative catalytic residue [active] 1249661005340 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1249661005341 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1249661005342 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1249661005343 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1249661005344 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1249661005345 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661005346 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1249661005347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661005348 Walker A/P-loop; other site 1249661005349 ATP binding site [chemical binding]; other site 1249661005350 Q-loop/lid; other site 1249661005351 ABC transporter signature motif; other site 1249661005352 Walker B; other site 1249661005353 D-loop; other site 1249661005354 H-loop/switch region; other site 1249661005355 TOBE domain; Region: TOBE_2; pfam08402 1249661005356 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 1249661005357 dimer interface [polypeptide binding]; other site 1249661005358 conserved gate region; other site 1249661005359 putative PBP binding loops; other site 1249661005360 ABC-ATPase subunit interface; other site 1249661005361 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661005362 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 1249661005363 dimer interface [polypeptide binding]; other site 1249661005364 conserved gate region; other site 1249661005365 putative PBP binding loops; other site 1249661005366 ABC-ATPase subunit interface; other site 1249661005367 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1249661005368 Putative phosphatase (DUF442); Region: DUF442; cl17385 1249661005369 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 1249661005370 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1249661005371 PAS fold; Region: PAS_4; pfam08448 1249661005372 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 1249661005373 putative active site [active] 1249661005374 heme pocket [chemical binding]; other site 1249661005375 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1249661005376 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 1249661005377 Walker A motif; other site 1249661005378 ATP binding site [chemical binding]; other site 1249661005379 Walker B motif; other site 1249661005380 arginine finger; other site 1249661005381 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1249661005382 DNA-binding interface [nucleotide binding]; DNA binding site 1249661005383 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1249661005384 Predicted transcriptional regulator [Transcription]; Region: COG3655 1249661005385 sequence-specific DNA binding site [nucleotide binding]; other site 1249661005386 salt bridge; other site 1249661005387 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661005388 putative transporter; Provisional; Region: PRK10054 1249661005389 putative substrate translocation pore; other site 1249661005390 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 1249661005391 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1249661005392 DNA binding residues [nucleotide binding] 1249661005393 putative dimer interface [polypeptide binding]; other site 1249661005394 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1249661005395 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1249661005396 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661005397 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1249661005398 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661005399 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661005400 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 1249661005401 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 1249661005402 Cl- selectivity filter; other site 1249661005403 Cl- binding residues [ion binding]; other site 1249661005404 pore gating glutamate residue; other site 1249661005405 dimer interface [polypeptide binding]; other site 1249661005406 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 1249661005407 Predicted membrane protein [Function unknown]; Region: COG2855 1249661005408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661005409 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1249661005410 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 1249661005411 putative dimerization interface [polypeptide binding]; other site 1249661005412 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661005413 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 1249661005414 substrate binding site [chemical binding]; other site 1249661005415 ATP binding site [chemical binding]; other site 1249661005416 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661005417 D-galactonate transporter; Region: 2A0114; TIGR00893 1249661005418 putative substrate translocation pore; other site 1249661005419 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1249661005420 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1249661005421 dimerization interface [polypeptide binding]; other site 1249661005422 ligand binding site [chemical binding]; other site 1249661005423 NADP binding site [chemical binding]; other site 1249661005424 catalytic site [active] 1249661005425 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249661005426 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249661005427 DNA binding site [nucleotide binding] 1249661005428 domain linker motif; other site 1249661005429 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1249661005430 putative ligand binding site [chemical binding]; other site 1249661005431 putative dimerization interface [polypeptide binding]; other site 1249661005432 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 1249661005433 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 1249661005434 PGDYG protein; Region: PGDYG; pfam14083 1249661005435 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1249661005436 LTXXQ motif family protein; Region: LTXXQ; pfam07813 1249661005437 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1249661005438 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1249661005439 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661005440 Double zinc ribbon; Region: DZR; pfam12773 1249661005441 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 1249661005442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661005443 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 1249661005444 dimer interface [polypeptide binding]; other site 1249661005445 phosphorylation site [posttranslational modification] 1249661005446 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 1249661005447 ATP binding site [chemical binding]; other site 1249661005448 Mg2+ binding site [ion binding]; other site 1249661005449 G-X-G motif; other site 1249661005450 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661005451 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 1249661005452 active site 1249661005453 phosphorylation site [posttranslational modification] 1249661005454 intermolecular recognition site; other site 1249661005455 dimerization interface [polypeptide binding]; other site 1249661005456 BetR domain; Region: BetR; pfam08667 1249661005457 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661005458 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 1249661005459 active site 1249661005460 phosphorylation site [posttranslational modification] 1249661005461 intermolecular recognition site; other site 1249661005462 dimerization interface [polypeptide binding]; other site 1249661005463 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1249661005464 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 1249661005465 active site 1249661005466 dimerization interface [polypeptide binding]; other site 1249661005467 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 1249661005468 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1249661005469 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 1249661005470 active site 1249661005471 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1249661005472 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1249661005473 active site 1249661005474 substrate binding site [chemical binding]; other site 1249661005475 cosubstrate binding site; other site 1249661005476 catalytic site [active] 1249661005477 major facilitator superfamily transporter; Provisional; Region: PRK05122 1249661005478 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661005479 putative substrate translocation pore; other site 1249661005480 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 1249661005481 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1249661005482 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1249661005483 AAA domain; Region: AAA_33; pfam13671 1249661005484 RNA helicase; Region: RNA_helicase; pfam00910 1249661005485 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1249661005486 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1249661005487 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1249661005488 oligomer interface [polypeptide binding]; other site 1249661005489 metal binding site [ion binding]; metal-binding site 1249661005490 metal binding site [ion binding]; metal-binding site 1249661005491 putative Cl binding site [ion binding]; other site 1249661005492 basic sphincter; other site 1249661005493 hydrophobic gate; other site 1249661005494 periplasmic entrance; other site 1249661005495 YciI-like protein; Reviewed; Region: PRK12866 1249661005496 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661005497 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661005498 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661005499 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661005500 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1249661005501 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1249661005502 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1249661005503 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1249661005504 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1249661005505 dihydroxyacetone kinase; Provisional; Region: PRK14479 1249661005506 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1249661005507 DAK2 domain; Region: Dak2; pfam02734 1249661005508 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 1249661005509 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1249661005510 hydrophobic ligand binding site; other site 1249661005511 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 1249661005512 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1249661005513 [2Fe-2S] cluster binding site [ion binding]; other site 1249661005514 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1249661005515 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1249661005516 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1249661005517 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1249661005518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1249661005519 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661005520 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661005521 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1249661005522 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1249661005523 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1249661005524 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1249661005525 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 1249661005526 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1249661005527 metal binding site [ion binding]; metal-binding site 1249661005528 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1249661005529 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 1249661005530 binding surface 1249661005531 TPR motif; other site 1249661005532 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1249661005533 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 1249661005534 binding surface 1249661005535 TPR motif; other site 1249661005536 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 1249661005537 binding surface 1249661005538 TPR motif; other site 1249661005539 TPR repeat; Region: TPR_11; pfam13414 1249661005540 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 1249661005541 binding surface 1249661005542 TPR motif; other site 1249661005543 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 1249661005544 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 1249661005545 TPR motif; other site 1249661005546 TPR repeat; Region: TPR_11; pfam13414 1249661005547 binding surface 1249661005548 TPR repeat; Region: TPR_11; pfam13414 1249661005549 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 1249661005550 binding surface 1249661005551 TPR motif; other site 1249661005552 TPR repeat; Region: TPR_11; pfam13414 1249661005553 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 1249661005554 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 1249661005555 TPR motif; other site 1249661005556 TPR repeat; Region: TPR_11; pfam13414 1249661005557 binding surface 1249661005558 TPR repeat; Region: TPR_11; pfam13414 1249661005559 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 1249661005560 binding surface 1249661005561 TPR motif; other site 1249661005562 TPR repeat; Region: TPR_11; pfam13414 1249661005563 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 1249661005564 binding surface 1249661005565 TPR motif; other site 1249661005566 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 1249661005567 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 1249661005568 PBP superfamily domain; Region: PBP_like_2; cl17296 1249661005569 type II secretion system protein F; Region: GspF; TIGR02120 1249661005570 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661005571 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661005572 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1249661005573 Secretin and TonB N terminus short domain; Region: STN; smart00965 1249661005574 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1249661005575 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1249661005576 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1249661005577 FecR protein; Region: FecR; pfam04773 1249661005578 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1249661005579 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1249661005580 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1249661005581 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1249661005582 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1249661005583 Surface antigen; Region: Bac_surface_Ag; pfam01103 1249661005584 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 1249661005585 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1249661005586 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1249661005587 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249661005588 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1249661005589 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1249661005590 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1249661005591 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249661005592 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1249661005593 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1249661005594 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 1249661005595 protein binding site [polypeptide binding]; other site 1249661005596 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 1249661005597 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1249661005598 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1249661005599 active site 1249661005600 catalytic residues [active] 1249661005601 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1249661005602 putative dimerization interface [polypeptide binding]; other site 1249661005603 putative ligand binding site [chemical binding]; other site 1249661005604 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249661005605 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661005606 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661005607 xylose isomerase; Provisional; Region: PRK05474 1249661005608 xylose isomerase; Region: xylose_isom_A; TIGR02630 1249661005609 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 1249661005610 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 1249661005611 putative ligand binding site [chemical binding]; other site 1249661005612 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1249661005613 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661005614 Walker A/P-loop; other site 1249661005615 ATP binding site [chemical binding]; other site 1249661005616 Q-loop/lid; other site 1249661005617 ABC transporter signature motif; other site 1249661005618 Walker B; other site 1249661005619 D-loop; other site 1249661005620 H-loop/switch region; other site 1249661005621 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661005622 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 1249661005623 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 1249661005624 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661005625 TM-ABC transporter signature motif; other site 1249661005626 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1249661005627 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249661005628 putative ligand binding site [chemical binding]; other site 1249661005629 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249661005630 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661005631 Walker A/P-loop; other site 1249661005632 ATP binding site [chemical binding]; other site 1249661005633 Q-loop/lid; other site 1249661005634 ABC transporter signature motif; other site 1249661005635 Walker B; other site 1249661005636 D-loop; other site 1249661005637 H-loop/switch region; other site 1249661005638 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661005639 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 1249661005640 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661005641 TM-ABC transporter signature motif; other site 1249661005642 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 1249661005643 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661005644 TM-ABC transporter signature motif; other site 1249661005645 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1249661005646 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1249661005647 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661005648 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661005649 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; cl17315 1249661005650 DNA binding residues [nucleotide binding] 1249661005651 dimerization interface [polypeptide binding]; other site 1249661005652 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1249661005653 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1249661005654 SLBB domain; Region: SLBB; pfam10531 1249661005655 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1249661005656 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1249661005657 active site 1249661005658 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 1249661005659 Chain length determinant protein; Region: Wzz; pfam02706 1249661005660 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1249661005661 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 1249661005662 Nucleotide binding site [chemical binding]; other site 1249661005663 P loop; other site 1249661005664 DTAP/Switch II; other site 1249661005665 Switch I; other site 1249661005666 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1249661005667 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 1249661005668 active site 1249661005669 dimer interface [polypeptide binding]; other site 1249661005670 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 1249661005671 Ligand Binding Site [chemical binding]; other site 1249661005672 Molecular Tunnel; other site 1249661005673 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661005674 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1249661005675 NAD binding site [chemical binding]; other site 1249661005676 putative substrate binding site 2 [chemical binding]; other site 1249661005677 putative substrate binding site 1 [chemical binding]; other site 1249661005678 active site 1249661005679 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1249661005680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661005681 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661005682 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 1249661005683 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249661005684 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 1249661005685 S-adenosylmethionine binding site [chemical binding]; other site 1249661005686 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661005687 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 1249661005688 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1249661005689 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661005690 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 1249661005691 putative ADP-binding pocket [chemical binding]; other site 1249661005692 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249661005693 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1249661005694 putative metal binding site; other site 1249661005695 putative glycosyl transferase; Provisional; Region: PRK10307 1249661005696 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 1249661005697 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1249661005698 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1249661005699 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1249661005700 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1249661005701 NADP binding site [chemical binding]; other site 1249661005702 active site 1249661005703 putative substrate binding site [chemical binding]; other site 1249661005704 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661005705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661005706 NAD(P) binding site [chemical binding]; other site 1249661005707 active site 1249661005708 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1249661005709 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661005710 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 1249661005711 active site 1249661005712 phosphorylation site [posttranslational modification] 1249661005713 intermolecular recognition site; other site 1249661005714 dimerization interface [polypeptide binding]; other site 1249661005715 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 1249661005716 DNA binding site [nucleotide binding] 1249661005717 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661005718 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 1249661005719 dimer interface [polypeptide binding]; other site 1249661005720 phosphorylation site [posttranslational modification] 1249661005721 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 1249661005722 ATP binding site [chemical binding]; other site 1249661005723 Mg2+ binding site [ion binding]; other site 1249661005724 G-X-G motif; other site 1249661005725 Outer membrane efflux protein; Region: OEP; pfam02321 1249661005726 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1249661005727 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1249661005728 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1249661005729 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1249661005730 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1249661005731 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 1249661005732 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1249661005733 active site 1249661005734 LssY C-terminus; Region: LssY_C; pfam14067 1249661005735 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1249661005736 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1249661005737 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 1249661005738 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249661005739 catalytic residue [active] 1249661005740 secretion system apparatus protein SsaU; Reviewed; Region: PRK12721 1249661005741 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1249661005742 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1249661005743 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1249661005744 type III secretion system protein YscR; Provisional; Region: PRK12797 1249661005745 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1249661005746 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1249661005747 type III secretion system ATPase; Validated; Region: PRK06820 1249661005748 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 1249661005749 Walker A motif; other site 1249661005750 ATP binding site [chemical binding]; other site 1249661005751 Walker B motif; other site 1249661005752 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1249661005753 FHIPEP family; Region: FHIPEP; pfam00771 1249661005754 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1249661005755 FHIPEP family; Region: FHIPEP; pfam00771 1249661005756 type III secretion system protein SsaM; Provisional; Region: PRK15353 1249661005757 two component system sensor kinase SsrA; Provisional; Region: PRK15347 1249661005758 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 1249661005759 dimerization interface [polypeptide binding]; other site 1249661005760 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 1249661005761 dimer interface [polypeptide binding]; other site 1249661005762 phosphorylation site [posttranslational modification] 1249661005763 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 1249661005764 ATP binding site [chemical binding]; other site 1249661005765 Mg2+ binding site [ion binding]; other site 1249661005766 G-X-G motif; other site 1249661005767 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 1249661005768 active site 1249661005769 phosphorylation site [posttranslational modification] 1249661005770 intermolecular recognition site; other site 1249661005771 dimerization interface [polypeptide binding]; other site 1249661005772 Hpt domain; Region: Hpt; pfam01627 1249661005773 two component system sensor kinase SsrB; Provisional; Region: PRK15369 1249661005774 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 1249661005775 active site 1249661005776 phosphorylation site [posttranslational modification] 1249661005777 intermolecular recognition site; other site 1249661005778 dimerization interface [polypeptide binding]; other site 1249661005779 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 1249661005780 DNA binding residues [nucleotide binding] 1249661005781 dimerization interface [polypeptide binding]; other site 1249661005782 outer membrane secretin SsaC; Provisional; Region: PRK15346 1249661005783 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661005784 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661005785 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661005786 type III secretion system protein SsaD; Provisional; Region: PRK15367 1249661005787 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1249661005788 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 1249661005789 HrpJ-like domain; Region: HrpJ; cl15454 1249661005790 type III secretion effector delivery regulator, TyeA family; Region: type_III_tyeA; TIGR02511 1249661005791 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1249661005792 Type III secretion system subunit; Region: T3SS_LEE_assoc; pfam13327 1249661005793 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 1249661005794 Type III secretion needle MxiH like; Region: MxiH; cl09641 1249661005795 type III secretion system protein, SsaH family; Region: type_III_ssaH; TIGR02498 1249661005796 Type III secretion needle MxiH like; Region: MxiH; cl09641 1249661005797 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661005798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661005799 EspA-like secreted protein; Region: EspA; cl04069 1249661005800 EspA-like secreted protein; Region: EspA; cl04069 1249661005801 EspA-like secreted protein; Region: EspA; cl04069 1249661005802 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1249661005803 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 1249661005804 TPR motif; other site 1249661005805 binding surface 1249661005806 pathogenicity island 2 effector protein SseC; Provisional; Region: PRK15362 1249661005807 pathogenicity island 2 effector protein SseD; Provisional; Region: PRK15361 1249661005808 pathogenicity island 2 effector protein SseE; Provisional; Region: PRK15360 1249661005809 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1249661005810 HicB family; Region: HicB; pfam05534 1249661005811 hypothetical protein; Region: PHA01083 1249661005812 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 1249661005813 sequence-specific DNA binding site [nucleotide binding]; other site 1249661005814 salt bridge; other site 1249661005815 Protein of unknown function (DUF550); Region: DUF550; pfam04447 1249661005816 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1249661005817 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1249661005818 cofactor binding site; other site 1249661005819 DNA binding site [nucleotide binding] 1249661005820 substrate interaction site [chemical binding]; other site 1249661005821 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1249661005822 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1249661005823 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1249661005824 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1249661005825 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1249661005826 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1249661005827 ParA-like protein; Provisional; Region: PHA02518 1249661005828 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 1249661005829 P-loop; other site 1249661005830 Magnesium ion binding site [ion binding]; other site 1249661005831 PAAR motif; Region: PAAR_motif; pfam05488 1249661005832 VRR-NUC domain; Region: VRR_NUC; pfam08774 1249661005833 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1249661005834 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1249661005835 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1249661005836 portal vertex protein; Provisional; Region: Q; PHA02536 1249661005837 Phage portal protein; Region: Phage_portal; pfam04860 1249661005838 terminase ATPase subunit; Provisional; Region: P; PHA02535 1249661005839 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1249661005840 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1249661005841 Homeodomain-like domain; Region: HTH_23; pfam13384 1249661005842 Winged helix-turn helix; Region: HTH_29; pfam13551 1249661005843 Winged helix-turn helix; Region: HTH_33; pfam13592 1249661005844 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1249661005845 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1249661005846 capsid-scaffolding protein; Provisional; Region: O; PHA02529 1249661005847 capsid protein; Provisional; Region: N; PHA02538 1249661005848 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1249661005849 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1249661005850 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1249661005851 hypothetical protein; Region: PHA02417 1249661005852 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1249661005853 Protein of unknown function (DUF754); Region: DUF754; pfam05449 1249661005854 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1249661005855 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 1249661005856 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 1249661005857 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1249661005858 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1249661005859 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1249661005860 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1249661005861 DNA methylase; Region: N6_N4_Mtase; pfam01555 1249661005862 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1249661005863 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1249661005864 baseplate wedge subunit; Provisional; Region: W; PHA02516 1249661005865 baseplate assembly protein; Provisional; Region: J; PHA02568 1249661005866 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1249661005867 Phage Tail Collar Domain; Region: Collar; pfam07484 1249661005868 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1249661005869 major tail sheath protein; Provisional; Region: FI; PHA02560 1249661005870 major tail tube protein; Provisional; Region: FII; PHA02600 1249661005871 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1249661005872 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1249661005873 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1249661005874 tail protein; Provisional; Region: D; PHA02561 1249661005875 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 1249661005876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661005877 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 1249661005878 dimerization interface [polypeptide binding]; other site 1249661005879 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 1249661005880 dimer interface [polypeptide binding]; other site 1249661005881 phosphorylation site [posttranslational modification] 1249661005882 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 1249661005883 ATP binding site [chemical binding]; other site 1249661005884 Mg2+ binding site [ion binding]; other site 1249661005885 G-X-G motif; other site 1249661005886 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1249661005887 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 1249661005888 active site 1249661005889 phosphorylation site [posttranslational modification] 1249661005890 intermolecular recognition site; other site 1249661005891 dimerization interface [polypeptide binding]; other site 1249661005892 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 1249661005893 DNA binding site [nucleotide binding] 1249661005894 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1249661005895 EF-hand domain pair; Region: EF_hand_5; pfam13499 1249661005896 pseudo EF-hand loop; other site 1249661005897 Ca2+ binding site [ion binding]; other site 1249661005898 MltA-interacting protein MipA; Region: MipA; cl01504 1249661005899 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 1249661005900 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 1249661005901 AMP-binding domain protein; Validated; Region: PRK07529 1249661005902 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661005903 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 1249661005904 acyl-activating enzyme (AAE) consensus motif; other site 1249661005905 putative AMP binding site [chemical binding]; other site 1249661005906 putative active site [active] 1249661005907 putative CoA binding site [chemical binding]; other site 1249661005908 putative transporter; Provisional; Region: PRK10504 1249661005909 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661005910 Coenzyme A binding pocket [chemical binding]; other site 1249661005911 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 1249661005912 S-adenosylmethionine binding site [chemical binding]; other site 1249661005913 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249661005914 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1249661005915 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 1249661005916 dimer interface [polypeptide binding]; other site 1249661005917 conserved gate region; other site 1249661005918 ABC-ATPase subunit interface; other site 1249661005919 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1249661005920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661005921 Walker A/P-loop; other site 1249661005922 ATP binding site [chemical binding]; other site 1249661005923 Q-loop/lid; other site 1249661005924 ABC transporter signature motif; other site 1249661005925 Walker B; other site 1249661005926 D-loop; other site 1249661005927 H-loop/switch region; other site 1249661005928 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 1249661005929 ABC-ATPase subunit interface; other site 1249661005930 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1249661005931 arginine deiminase; Provisional; Region: PRK01388 1249661005932 ornithine carbamoyltransferase; Validated; Region: PRK02102 1249661005933 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1249661005934 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1249661005935 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1249661005936 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1249661005937 putative substrate binding site [chemical binding]; other site 1249661005938 nucleotide binding site [chemical binding]; other site 1249661005939 nucleotide binding site [chemical binding]; other site 1249661005940 homodimer interface [polypeptide binding]; other site 1249661005941 short chain dehydrogenase; Provisional; Region: PRK09291 1249661005942 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1249661005943 NADP binding site [chemical binding]; other site 1249661005944 active site 1249661005945 steroid binding site; other site 1249661005946 Domain of unknown function (DUF336); Region: DUF336; cl01249 1249661005947 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661005948 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661005949 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 1249661005950 putative effector binding pocket; other site 1249661005951 putative dimerization interface [polypeptide binding]; other site 1249661005952 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1249661005953 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 1249661005954 C-terminal domain interface [polypeptide binding]; other site 1249661005955 GSH binding site (G-site) [chemical binding]; other site 1249661005956 dimer interface [polypeptide binding]; other site 1249661005957 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1249661005958 dimer interface [polypeptide binding]; other site 1249661005959 N-terminal domain interface [polypeptide binding]; other site 1249661005960 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1249661005961 MarR family; Region: MarR_2; pfam12802 1249661005962 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1249661005963 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 1249661005964 dimerization interface [polypeptide binding]; other site 1249661005965 ligand binding site [chemical binding]; other site 1249661005966 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 1249661005967 S-adenosylmethionine binding site [chemical binding]; other site 1249661005968 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1249661005969 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1249661005970 MarR family; Region: MarR_2; pfam12802 1249661005971 Ferritin-like; Region: Ferritin-like; pfam12902 1249661005972 MarR family; Region: MarR_2; cl17246 1249661005973 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1249661005974 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1249661005975 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1249661005976 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1249661005977 active site 1249661005978 SAM binding site [chemical binding]; other site 1249661005979 homodimer interface [polypeptide binding]; other site 1249661005980 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1249661005981 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1249661005982 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1249661005983 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1249661005984 active site 1249661005985 putative homodimer interface [polypeptide binding]; other site 1249661005986 SAM binding site [chemical binding]; other site 1249661005987 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1249661005988 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 1249661005989 precorrin-3B synthase; Region: CobG; TIGR02435 1249661005990 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1249661005991 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1249661005992 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1249661005993 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1249661005994 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1249661005995 active site 1249661005996 SAM binding site [chemical binding]; other site 1249661005997 homodimer interface [polypeptide binding]; other site 1249661005998 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1249661005999 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1249661006000 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1249661006001 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1249661006002 active site 1249661006003 SAM binding site [chemical binding]; other site 1249661006004 homodimer interface [polypeptide binding]; other site 1249661006005 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 1249661006006 active site 1249661006007 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 1249661006008 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1249661006009 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 1249661006010 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1249661006011 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1249661006012 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1249661006013 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 1249661006014 metal ion-dependent adhesion site (MIDAS); other site 1249661006015 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 1249661006016 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1249661006017 Walker A motif; other site 1249661006018 ATP binding site [chemical binding]; other site 1249661006019 Walker B motif; other site 1249661006020 arginine finger; other site 1249661006021 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1249661006022 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1249661006023 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1249661006024 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1249661006025 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1249661006026 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1249661006027 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1249661006028 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1249661006029 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 1249661006030 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1249661006031 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 1249661006032 homodimer interface [polypeptide binding]; other site 1249661006033 Walker A motif; other site 1249661006034 ATP binding site [chemical binding]; other site 1249661006035 hydroxycobalamin binding site [chemical binding]; other site 1249661006036 Walker B motif; other site 1249661006037 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1249661006038 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 1249661006039 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1249661006040 catalytic triad [active] 1249661006041 Inclusion body protein; Region: PixA; pfam12306 1249661006042 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1249661006043 catalytic site [active] 1249661006044 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1249661006045 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 1249661006046 N-terminal plug; other site 1249661006047 ligand-binding site [chemical binding]; other site 1249661006048 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1249661006049 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661006050 Condensation domain; Region: Condensation; pfam00668 1249661006051 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661006052 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661006053 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661006054 acyl-activating enzyme (AAE) consensus motif; other site 1249661006055 AMP binding site [chemical binding]; other site 1249661006056 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661006057 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661006058 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661006059 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661006060 acyl-activating enzyme (AAE) consensus motif; other site 1249661006061 AMP binding site [chemical binding]; other site 1249661006062 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661006063 Condensation domain; Region: Condensation; pfam00668 1249661006064 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661006065 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661006066 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661006067 acyl-activating enzyme (AAE) consensus motif; other site 1249661006068 AMP binding site [chemical binding]; other site 1249661006069 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661006070 Condensation domain; Region: Condensation; pfam00668 1249661006071 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1249661006072 Condensation domain; Region: Condensation; pfam00668 1249661006073 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661006074 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661006075 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661006076 acyl-activating enzyme (AAE) consensus motif; other site 1249661006077 AMP binding site [chemical binding]; other site 1249661006078 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661006079 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 1249661006080 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1249661006081 Walker A/P-loop; other site 1249661006082 ATP binding site [chemical binding]; other site 1249661006083 Q-loop/lid; other site 1249661006084 ABC transporter signature motif; other site 1249661006085 Walker B; other site 1249661006086 D-loop; other site 1249661006087 H-loop/switch region; other site 1249661006088 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 1249661006089 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1249661006090 siderophore binding site; other site 1249661006091 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 1249661006092 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1249661006093 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1249661006094 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249661006095 FecCD transport family; Region: FecCD; pfam01032 1249661006096 dimer interface [polypeptide binding]; other site 1249661006097 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 1249661006098 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249661006099 ABC-ATPase subunit interface; other site 1249661006100 dimer interface [polypeptide binding]; other site 1249661006101 putative PBP binding regions; other site 1249661006102 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1249661006103 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249661006104 Walker A/P-loop; other site 1249661006105 ATP binding site [chemical binding]; other site 1249661006106 Q-loop/lid; other site 1249661006107 ABC transporter signature motif; other site 1249661006108 Walker B; other site 1249661006109 D-loop; other site 1249661006110 H-loop/switch region; other site 1249661006111 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1249661006112 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1249661006113 MbtH-like protein; Region: MbtH; cl01279 1249661006114 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1249661006115 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661006116 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1249661006117 DNA binding residues [nucleotide binding] 1249661006118 short chain dehydrogenase; Provisional; Region: PRK07060 1249661006119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661006120 NAD(P) binding site [chemical binding]; other site 1249661006121 active site 1249661006122 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1249661006123 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 1249661006124 N- and C-terminal domain interface [polypeptide binding]; other site 1249661006125 putative active site [active] 1249661006126 MgATP binding site [chemical binding]; other site 1249661006127 catalytic site [active] 1249661006128 metal binding site [ion binding]; metal-binding site 1249661006129 putative xylulose binding site [chemical binding]; other site 1249661006130 putative homodimer interface [polypeptide binding]; other site 1249661006131 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1249661006132 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 1249661006133 putative NAD(P) binding site [chemical binding]; other site 1249661006134 catalytic Zn binding site [ion binding]; other site 1249661006135 structural Zn binding site [ion binding]; other site 1249661006136 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661006137 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 1249661006138 TM-ABC transporter signature motif; other site 1249661006139 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249661006140 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661006141 Walker A/P-loop; other site 1249661006142 ATP binding site [chemical binding]; other site 1249661006143 Q-loop/lid; other site 1249661006144 ABC transporter signature motif; other site 1249661006145 Walker B; other site 1249661006146 D-loop; other site 1249661006147 H-loop/switch region; other site 1249661006148 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661006149 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1249661006150 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249661006151 putative ligand binding site [chemical binding]; other site 1249661006152 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1249661006153 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661006154 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661006155 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 1249661006156 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 1249661006157 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 1249661006158 Ligand Binding Site [chemical binding]; other site 1249661006159 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1249661006160 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1249661006161 Walker A/P-loop; other site 1249661006162 ATP binding site [chemical binding]; other site 1249661006163 Q-loop/lid; other site 1249661006164 ABC transporter signature motif; other site 1249661006165 Walker B; other site 1249661006166 D-loop; other site 1249661006167 H-loop/switch region; other site 1249661006168 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1249661006169 multidrug efflux protein; Reviewed; Region: PRK09577 1249661006170 Protein export membrane protein; Region: SecD_SecF; cl14618 1249661006171 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1249661006172 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661006173 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661006174 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1249661006175 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661006176 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1249661006177 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1249661006178 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249661006179 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 1249661006180 dimer interface [polypeptide binding]; other site 1249661006181 conserved gate region; other site 1249661006182 putative PBP binding loops; other site 1249661006183 ABC-ATPase subunit interface; other site 1249661006184 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 1249661006185 ABC-ATPase subunit interface; other site 1249661006186 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249661006187 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 1249661006188 substrate binding pocket [chemical binding]; other site 1249661006189 membrane-bound complex binding site; other site 1249661006190 hinge residues; other site 1249661006191 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1249661006192 TadE-like protein; Region: TadE; pfam07811 1249661006193 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 1249661006194 binding surface 1249661006195 TPR motif; other site 1249661006196 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1249661006197 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661006198 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1249661006199 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661006200 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1249661006201 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 1249661006202 ATP binding site [chemical binding]; other site 1249661006203 Walker A motif; other site 1249661006204 hexamer interface [polypeptide binding]; other site 1249661006205 Walker B motif; other site 1249661006206 AAA domain; Region: AAA_31; pfam13614 1249661006207 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 1249661006208 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 1249661006209 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 1249661006210 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1249661006211 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1249661006212 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661006213 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1249661006214 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1249661006215 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661006216 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1249661006217 putative substrate translocation pore; other site 1249661006218 SpoVR family protein; Provisional; Region: PRK11767 1249661006219 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1249661006220 hypothetical protein; Provisional; Region: PRK05325 1249661006221 PrkA family serine protein kinase; Provisional; Region: PRK15455 1249661006222 AAA ATPase domain; Region: AAA_16; pfam13191 1249661006223 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1249661006224 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1249661006225 Tar ligand binding domain homologue; Region: TarH; pfam02203 1249661006226 dimer interface [polypeptide binding]; other site 1249661006227 ligand binding site [chemical binding]; other site 1249661006228 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 1249661006229 dimerization interface [polypeptide binding]; other site 1249661006230 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661006231 dimer interface [polypeptide binding]; other site 1249661006232 putative CheW interface [polypeptide binding]; other site 1249661006233 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661006234 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 1249661006235 substrate binding site [chemical binding]; other site 1249661006236 dimer interface [polypeptide binding]; other site 1249661006237 ATP binding site [chemical binding]; other site 1249661006238 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249661006239 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249661006240 DNA binding site [nucleotide binding] 1249661006241 domain linker motif; other site 1249661006242 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249661006243 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661006244 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 1249661006245 TM-ABC transporter signature motif; other site 1249661006246 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249661006247 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661006248 Walker A/P-loop; other site 1249661006249 ATP binding site [chemical binding]; other site 1249661006250 Q-loop/lid; other site 1249661006251 ABC transporter signature motif; other site 1249661006252 Walker B; other site 1249661006253 D-loop; other site 1249661006254 H-loop/switch region; other site 1249661006255 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661006256 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 1249661006257 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249661006258 ligand binding site [chemical binding]; other site 1249661006259 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 1249661006260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661006261 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1249661006262 substrate binding site [chemical binding]; other site 1249661006263 dimerization interface [polypeptide binding]; other site 1249661006264 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1249661006265 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1249661006266 Walker A/P-loop; other site 1249661006267 ATP binding site [chemical binding]; other site 1249661006268 Q-loop/lid; other site 1249661006269 ABC transporter signature motif; other site 1249661006270 Walker B; other site 1249661006271 D-loop; other site 1249661006272 H-loop/switch region; other site 1249661006273 TOBE-like domain; Region: TOBE_3; pfam12857 1249661006274 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 1249661006275 dimer interface [polypeptide binding]; other site 1249661006276 conserved gate region; other site 1249661006277 putative PBP binding loops; other site 1249661006278 ABC-ATPase subunit interface; other site 1249661006279 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1249661006280 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 1249661006281 dimer interface [polypeptide binding]; other site 1249661006282 conserved gate region; other site 1249661006283 putative PBP binding loops; other site 1249661006284 ABC-ATPase subunit interface; other site 1249661006285 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1249661006286 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 1249661006287 substrate binding pocket [chemical binding]; other site 1249661006288 membrane-bound complex binding site; other site 1249661006289 LexA repressor; Validated; Region: PRK00215 1249661006290 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1249661006291 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 1249661006292 Catalytic site [active] 1249661006293 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 1249661006294 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 1249661006295 Ligand Binding Site [chemical binding]; other site 1249661006296 nodulation ABC transporter NodI; Provisional; Region: PRK13537 1249661006297 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1249661006298 Walker A/P-loop; other site 1249661006299 ATP binding site [chemical binding]; other site 1249661006300 Q-loop/lid; other site 1249661006301 ABC transporter signature motif; other site 1249661006302 Walker B; other site 1249661006303 D-loop; other site 1249661006304 H-loop/switch region; other site 1249661006305 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1249661006306 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1249661006307 Predicted permease; Region: DUF318; cl17795 1249661006308 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 1249661006309 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1249661006310 active site 1249661006311 catalytic tetrad [active] 1249661006312 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 1249661006313 CoenzymeA binding site [chemical binding]; other site 1249661006314 subunit interaction site [polypeptide binding]; other site 1249661006315 PHB binding site; other site 1249661006316 Predicted transcriptional regulators [Transcription]; Region: COG1733 1249661006317 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1249661006318 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1249661006319 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1249661006320 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1249661006321 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 1249661006322 FMN binding site [chemical binding]; other site 1249661006323 active site 1249661006324 catalytic residues [active] 1249661006325 substrate binding site [chemical binding]; other site 1249661006326 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1249661006327 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1249661006328 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1249661006329 Walker A/P-loop; other site 1249661006330 ATP binding site [chemical binding]; other site 1249661006331 Q-loop/lid; other site 1249661006332 ABC transporter signature motif; other site 1249661006333 Walker B; other site 1249661006334 D-loop; other site 1249661006335 H-loop/switch region; other site 1249661006336 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1249661006337 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 1249661006338 dimer interface [polypeptide binding]; other site 1249661006339 conserved gate region; other site 1249661006340 putative PBP binding loops; other site 1249661006341 ABC-ATPase subunit interface; other site 1249661006342 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1249661006343 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 1249661006344 active site 1249661006345 dimer interface [polypeptide binding]; other site 1249661006346 non-prolyl cis peptide bond; other site 1249661006347 insertion regions; other site 1249661006348 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 1249661006349 substrate binding site [chemical binding]; other site 1249661006350 oxyanion hole (OAH) forming residues; other site 1249661006351 trimer interface [polypeptide binding]; other site 1249661006352 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1249661006353 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1249661006354 hypothetical protein; Provisional; Region: PRK02487 1249661006355 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 1249661006356 nudix motif; other site 1249661006357 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1249661006358 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1249661006359 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1249661006360 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1249661006361 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1249661006362 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 1249661006363 quinone interaction residues [chemical binding]; other site 1249661006364 active site 1249661006365 catalytic residues [active] 1249661006366 FMN binding site [chemical binding]; other site 1249661006367 substrate binding site [chemical binding]; other site 1249661006368 cystine transporter subunit; Provisional; Region: PRK11260 1249661006369 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 1249661006370 substrate binding pocket [chemical binding]; other site 1249661006371 membrane-bound complex binding site; other site 1249661006372 hinge residues; other site 1249661006373 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661006374 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 1249661006375 dimer interface [polypeptide binding]; other site 1249661006376 conserved gate region; other site 1249661006377 putative PBP binding loops; other site 1249661006378 ABC-ATPase subunit interface; other site 1249661006379 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1249661006380 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249661006381 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1249661006382 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661006383 DNA-binding site [nucleotide binding]; DNA binding site 1249661006384 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1249661006385 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 1249661006386 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249661006387 active site 1249661006388 dimer interface [polypeptide binding]; other site 1249661006389 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1249661006390 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 1249661006391 amidase catalytic site [active] 1249661006392 Zn binding residues [ion binding]; other site 1249661006393 substrate binding site [chemical binding]; other site 1249661006394 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1249661006395 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1249661006396 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1249661006397 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1249661006398 ribonuclease R; Region: RNase_R; TIGR02063 1249661006399 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1249661006400 RNB domain; Region: RNB; pfam00773 1249661006401 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 1249661006402 RNA binding site [nucleotide binding]; other site 1249661006403 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661006404 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661006405 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661006406 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661006407 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661006408 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661006409 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661006410 integrase; Provisional; Region: PRK09692 1249661006411 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 1249661006412 active site 1249661006413 Int/Topo IB signature motif; other site 1249661006414 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1249661006415 VRR-NUC domain; Region: VRR_NUC; pfam08774 1249661006416 PAAR motif; Region: PAAR_motif; pfam05488 1249661006417 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1249661006418 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1249661006419 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 1249661006420 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 1249661006421 Magnesium ion binding site [ion binding]; other site 1249661006422 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1249661006423 ParB-like nuclease domain; Region: ParBc; pfam02195 1249661006424 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1249661006425 Part of AAA domain; Region: AAA_19; pfam13245 1249661006426 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1249661006427 AAA domain; Region: AAA_12; pfam13087 1249661006428 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1249661006429 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1249661006430 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1249661006431 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 1249661006432 dimer interface [polypeptide binding]; other site 1249661006433 ssDNA binding site [nucleotide binding]; other site 1249661006434 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249661006435 DNA topoisomerase III; Provisional; Region: PRK07726 1249661006436 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 1249661006437 active site 1249661006438 putative interdomain interaction site [polypeptide binding]; other site 1249661006439 putative metal-binding site [ion binding]; other site 1249661006440 putative nucleotide binding site [chemical binding]; other site 1249661006441 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 1249661006442 domain I; other site 1249661006443 DNA binding groove [nucleotide binding] 1249661006444 phosphate binding site [ion binding]; other site 1249661006445 domain II; other site 1249661006446 domain III; other site 1249661006447 nucleotide binding site [chemical binding]; other site 1249661006448 catalytic site [active] 1249661006449 domain IV; other site 1249661006450 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249661006451 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 1249661006452 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1249661006453 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 1249661006454 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1249661006455 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1249661006456 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 1249661006457 nucleotide binding region [chemical binding]; other site 1249661006458 ATP-binding site [chemical binding]; other site 1249661006459 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1249661006460 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1249661006461 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 1249661006462 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1249661006463 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1249661006464 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1249661006465 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1249661006466 AAA domain; Region: AAA_21; pfam13304 1249661006467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661006468 ABC transporter signature motif; other site 1249661006469 Walker B; other site 1249661006470 D-loop; other site 1249661006471 H-loop/switch region; other site 1249661006472 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1249661006473 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1249661006474 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1249661006475 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1249661006476 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1249661006477 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 1249661006478 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1249661006479 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1249661006480 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1249661006481 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1249661006482 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1249661006483 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1249661006484 catalytic residues [active] 1249661006485 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1249661006486 MPN+ (JAMM) motif; other site 1249661006487 Zinc-binding site [ion binding]; other site 1249661006488 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249661006489 trimer interface [polypeptide binding]; other site 1249661006490 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 1249661006491 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1249661006492 RHS Repeat; Region: RHS_repeat; pfam05593 1249661006493 RHS Repeat; Region: RHS_repeat; pfam05593 1249661006494 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1249661006495 RHS Repeat; Region: RHS_repeat; pfam05593 1249661006496 RHS Repeat; Region: RHS_repeat; pfam05593 1249661006497 RHS Repeat; Region: RHS_repeat; pfam05593 1249661006498 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1249661006499 RHS Repeat; Region: RHS_repeat; pfam05593 1249661006500 RHS Repeat; Region: RHS_repeat; cl11982 1249661006501 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1249661006502 RHS Repeat; Region: RHS_repeat; cl11982 1249661006503 IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the...; Region: IPT_PCSR; cd00603 1249661006504 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1249661006505 short chain dehydrogenase; Provisional; Region: PRK07825 1249661006506 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 1249661006507 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 1249661006508 substrate binding pocket [chemical binding]; other site 1249661006509 membrane-bound complex binding site; other site 1249661006510 hinge residues; other site 1249661006511 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 1249661006512 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 1249661006513 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661006514 catalytic residue [active] 1249661006515 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 1249661006516 S-adenosylmethionine binding site [chemical binding]; other site 1249661006517 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1249661006518 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 1249661006519 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661006520 trimer interface [polypeptide binding]; other site 1249661006521 eyelet of channel; other site 1249661006522 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1249661006523 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1249661006524 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1249661006525 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1249661006526 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1249661006527 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661006528 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 1249661006529 dimer interface [polypeptide binding]; other site 1249661006530 conserved gate region; other site 1249661006531 putative PBP binding loops; other site 1249661006532 ABC-ATPase subunit interface; other site 1249661006533 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249661006534 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 1249661006535 dimer interface [polypeptide binding]; other site 1249661006536 conserved gate region; other site 1249661006537 putative PBP binding loops; other site 1249661006538 ABC-ATPase subunit interface; other site 1249661006539 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249661006540 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661006541 Walker A/P-loop; other site 1249661006542 ATP binding site [chemical binding]; other site 1249661006543 Q-loop/lid; other site 1249661006544 ABC transporter signature motif; other site 1249661006545 Walker B; other site 1249661006546 D-loop; other site 1249661006547 H-loop/switch region; other site 1249661006548 TOBE domain; Region: TOBE_2; pfam08402 1249661006549 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1249661006550 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661006551 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1249661006552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661006553 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 1249661006554 putative dimerization interface [polypeptide binding]; other site 1249661006555 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1249661006556 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1249661006557 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 1249661006558 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1249661006559 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1249661006560 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 1249661006561 amidase catalytic site [active] 1249661006562 Zn binding residues [ion binding]; other site 1249661006563 substrate binding site [chemical binding]; other site 1249661006564 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1249661006565 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 1249661006566 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1249661006567 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1249661006568 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1249661006569 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 1249661006570 MASE1; Region: MASE1; cl17823 1249661006571 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1249661006572 Putative helicase; Region: TraI_2; pfam07514 1249661006573 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1249661006574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1249661006575 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1249661006576 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1249661006577 Predicted helicase [General function prediction only]; Region: COG4889 1249661006578 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 1249661006579 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 1249661006580 ATP binding site [chemical binding]; other site 1249661006581 putative Mg++ binding site [ion binding]; other site 1249661006582 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 1249661006583 ATP-binding site [chemical binding]; other site 1249661006584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661006585 ABC transporter signature motif; other site 1249661006586 Walker B; other site 1249661006587 D-loop; other site 1249661006588 H-loop/switch region; other site 1249661006589 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; pfam07745 1249661006590 sugar efflux transporter; Region: 2A0120; TIGR00899 1249661006591 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661006592 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1249661006593 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1249661006594 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1249661006595 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1249661006596 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 1249661006597 dimer interface [polypeptide binding]; other site 1249661006598 conserved gate region; other site 1249661006599 putative PBP binding loops; other site 1249661006600 ABC-ATPase subunit interface; other site 1249661006601 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 1249661006602 dimer interface [polypeptide binding]; other site 1249661006603 putative PBP binding loops; other site 1249661006604 ABC-ATPase subunit interface; other site 1249661006605 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1249661006606 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1249661006607 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1249661006608 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1249661006609 Walker A/P-loop; other site 1249661006610 ATP binding site [chemical binding]; other site 1249661006611 Q-loop/lid; other site 1249661006612 ABC transporter signature motif; other site 1249661006613 Walker B; other site 1249661006614 D-loop; other site 1249661006615 H-loop/switch region; other site 1249661006616 TOBE domain; Region: TOBE_2; pfam08402 1249661006617 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249661006618 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249661006619 DNA binding site [nucleotide binding] 1249661006620 domain linker motif; other site 1249661006621 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 1249661006622 dimerization interface [polypeptide binding]; other site 1249661006623 ligand binding site [chemical binding]; other site 1249661006624 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1249661006625 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1249661006626 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1249661006627 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249661006628 trimer interface [polypeptide binding]; other site 1249661006629 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249661006630 trimer interface [polypeptide binding]; other site 1249661006631 YadA-like C-terminal region; Region: YadA; pfam03895 1249661006632 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661006633 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 1249661006634 active site 1249661006635 phosphorylation site [posttranslational modification] 1249661006636 intermolecular recognition site; other site 1249661006637 dimerization interface [polypeptide binding]; other site 1249661006638 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661006639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661006640 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1249661006641 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1249661006642 metal binding site [ion binding]; metal-binding site 1249661006643 high affinity sulphate transporter 1; Region: sulP; TIGR00815 1249661006644 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1249661006645 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249661006646 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 1249661006647 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 1249661006648 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1249661006649 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1249661006650 putative sialic acid transporter; Region: 2A0112; TIGR00891 1249661006651 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661006652 putative substrate translocation pore; other site 1249661006653 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661006654 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661006655 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1249661006656 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1249661006657 acyl-activating enzyme (AAE) consensus motif; other site 1249661006658 putative AMP binding site [chemical binding]; other site 1249661006659 putative active site [active] 1249661006660 putative CoA binding site [chemical binding]; other site 1249661006661 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 1249661006662 bacterial Hfq-like; Region: Hfq; cd01716 1249661006663 hexamer interface [polypeptide binding]; other site 1249661006664 Sm1 motif; other site 1249661006665 RNA binding site [nucleotide binding]; other site 1249661006666 Sm2 motif; other site 1249661006667 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1249661006668 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1249661006669 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 1249661006670 Walker A motif; other site 1249661006671 ATP binding site [chemical binding]; other site 1249661006672 Walker B motif; other site 1249661006673 arginine finger; other site 1249661006674 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661006675 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1249661006676 Predicted membrane protein [Function unknown]; Region: COG4655 1249661006677 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1249661006678 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 1249661006679 TPR repeat; Region: TPR_11; pfam13414 1249661006680 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 1249661006681 binding surface 1249661006682 TPR motif; other site 1249661006683 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1249661006684 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661006685 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1249661006686 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661006687 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1249661006688 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 1249661006689 ATP binding site [chemical binding]; other site 1249661006690 Walker A motif; other site 1249661006691 hexamer interface [polypeptide binding]; other site 1249661006692 Walker B motif; other site 1249661006693 AAA domain; Region: AAA_31; pfam13614 1249661006694 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 1249661006695 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1249661006696 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1249661006697 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661006698 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1249661006699 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1249661006700 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1249661006701 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1249661006702 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1249661006703 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1249661006704 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1249661006705 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1249661006706 Predicted ATPase [General function prediction only]; Region: COG1485 1249661006707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661006708 Walker B; other site 1249661006709 D-loop; other site 1249661006710 H-loop/switch region; other site 1249661006711 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1249661006712 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661006713 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1249661006714 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1249661006715 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 1249661006716 E3 interaction surface; other site 1249661006717 lipoyl attachment site [posttranslational modification]; other site 1249661006718 e3 binding domain; Region: E3_binding; pfam02817 1249661006719 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1249661006720 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1249661006721 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 1249661006722 TPP-binding site [chemical binding]; other site 1249661006723 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1249661006724 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1249661006725 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1249661006726 G1 box; other site 1249661006727 putative GEF interaction site [polypeptide binding]; other site 1249661006728 GTP/Mg2+ binding site [chemical binding]; other site 1249661006729 Switch I region; other site 1249661006730 G2 box; other site 1249661006731 G3 box; other site 1249661006732 Switch II region; other site 1249661006733 G4 box; other site 1249661006734 G5 box; other site 1249661006735 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 1249661006736 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 1249661006737 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1249661006738 MarR family; Region: MarR_2; pfam12802 1249661006739 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661006740 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1249661006741 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661006742 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 1249661006743 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1249661006744 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661006745 putative substrate translocation pore; other site 1249661006746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661006747 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 1249661006748 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1249661006749 RNA binding site [nucleotide binding]; other site 1249661006750 active site 1249661006751 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1249661006752 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1249661006753 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1249661006754 translation initiation factor IF-2; Region: IF-2; TIGR00487 1249661006755 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1249661006756 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1249661006757 G1 box; other site 1249661006758 putative GEF interaction site [polypeptide binding]; other site 1249661006759 GTP/Mg2+ binding site [chemical binding]; other site 1249661006760 Switch I region; other site 1249661006761 G2 box; other site 1249661006762 G3 box; other site 1249661006763 Switch II region; other site 1249661006764 G4 box; other site 1249661006765 G5 box; other site 1249661006766 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 1249661006767 Translation-initiation factor 2; Region: IF-2; pfam11987 1249661006768 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 1249661006769 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1249661006770 NusA N-terminal domain; Region: NusA_N; pfam08529 1249661006771 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 1249661006772 RNA binding site [nucleotide binding]; other site 1249661006773 homodimer interface [polypeptide binding]; other site 1249661006774 NusA-like KH domain; Region: KH_5; pfam13184 1249661006775 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 1249661006776 G-X-X-G motif; other site 1249661006777 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1249661006778 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1249661006779 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1249661006780 Sm and related proteins; Region: Sm_like; cl00259 1249661006781 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1249661006782 putative oligomer interface [polypeptide binding]; other site 1249661006783 putative RNA binding site [nucleotide binding]; other site 1249661006784 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1249661006785 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 1249661006786 RNA binding surface [nucleotide binding]; other site 1249661006787 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1249661006788 probable active site [active] 1249661006789 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1249661006790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661006791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661006792 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 1249661006793 putative dimerization interface [polypeptide binding]; other site 1249661006794 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1249661006795 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 1249661006796 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1249661006797 putative active site [active] 1249661006798 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1249661006799 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1249661006800 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1249661006801 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1249661006802 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 1249661006803 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 1249661006804 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 1249661006805 S-adenosylmethionine binding site [chemical binding]; other site 1249661006806 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1249661006807 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1249661006808 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1249661006809 DNA binding residues [nucleotide binding] 1249661006810 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 1249661006811 IHF dimer interface [polypeptide binding]; other site 1249661006812 IHF - DNA interface [nucleotide binding]; other site 1249661006813 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1249661006814 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 1249661006815 putative tRNA-binding site [nucleotide binding]; other site 1249661006816 B3/4 domain; Region: B3_4; pfam03483 1249661006817 tRNA synthetase B5 domain; Region: B5; smart00874 1249661006818 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 1249661006819 dimer interface [polypeptide binding]; other site 1249661006820 motif 1; other site 1249661006821 motif 3; other site 1249661006822 motif 2; other site 1249661006823 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1249661006824 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1249661006825 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1249661006826 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 1249661006827 dimer interface [polypeptide binding]; other site 1249661006828 motif 1; other site 1249661006829 active site 1249661006830 motif 2; other site 1249661006831 motif 3; other site 1249661006832 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1249661006833 23S rRNA binding site [nucleotide binding]; other site 1249661006834 L21 binding site [polypeptide binding]; other site 1249661006835 L13 binding site [polypeptide binding]; other site 1249661006836 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1249661006837 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1249661006838 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1249661006839 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1249661006840 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1249661006841 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 1249661006842 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1249661006843 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 1249661006844 active site 1249661006845 dimer interface [polypeptide binding]; other site 1249661006846 motif 1; other site 1249661006847 motif 2; other site 1249661006848 motif 3; other site 1249661006849 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 1249661006850 anticodon binding site; other site 1249661006851 HD domain; Region: HD_4; pfam13328 1249661006852 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1249661006853 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1249661006854 synthetase active site [active] 1249661006855 NTP binding site [chemical binding]; other site 1249661006856 metal binding site [ion binding]; metal-binding site 1249661006857 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 1249661006858 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1249661006859 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 1249661006860 homotrimer interaction site [polypeptide binding]; other site 1249661006861 putative active site [active] 1249661006862 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661006863 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1249661006864 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1249661006865 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1249661006866 PAS domain; Region: PAS_9; pfam13426 1249661006867 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 1249661006868 putative active site [active] 1249661006869 heme pocket [chemical binding]; other site 1249661006870 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 1249661006871 DNA binding residues [nucleotide binding] 1249661006872 dimerization interface [polypeptide binding]; other site 1249661006873 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 1249661006874 active site 1249661006875 short chain dehydrogenase; Provisional; Region: PRK06949 1249661006876 classical (c) SDRs; Region: SDR_c; cd05233 1249661006877 NAD(P) binding site [chemical binding]; other site 1249661006878 active site 1249661006879 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1249661006880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1249661006881 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1249661006882 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1249661006883 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1249661006884 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1249661006885 Tetramer interface [polypeptide binding]; other site 1249661006886 active site 1249661006887 FMN-binding site [chemical binding]; other site 1249661006888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661006889 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1249661006890 putative acyl-acceptor binding pocket; other site 1249661006891 FOG: CBS domain [General function prediction only]; Region: COG0517 1249661006892 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 1249661006893 Protein of unknown function (DUF962); Region: DUF962; cl01879 1249661006894 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1249661006895 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1249661006896 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1249661006897 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1249661006898 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1249661006899 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661006900 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249661006901 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1249661006902 active site 1249661006903 metal binding site [ion binding]; metal-binding site 1249661006904 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1249661006905 transcriptional regulator; Provisional; Region: PRK10632 1249661006906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661006907 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 1249661006908 putative effector binding pocket; other site 1249661006909 dimerization interface [polypeptide binding]; other site 1249661006910 Outer membrane efflux protein; Region: OEP; pfam02321 1249661006911 Outer membrane efflux protein; Region: OEP; pfam02321 1249661006912 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1249661006913 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1249661006914 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1249661006915 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1249661006916 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661006917 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661006918 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1249661006919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661006920 dimer interface [polypeptide binding]; other site 1249661006921 putative CheW interface [polypeptide binding]; other site 1249661006922 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661006923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661006924 putative substrate translocation pore; other site 1249661006925 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1249661006926 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1249661006927 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1249661006928 Part of AAA domain; Region: AAA_19; pfam13245 1249661006929 Family description; Region: UvrD_C_2; pfam13538 1249661006930 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1249661006931 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1249661006932 HIGH motif; other site 1249661006933 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1249661006934 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1249661006935 active site 1249661006936 KMSKS motif; other site 1249661006937 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1249661006938 tRNA binding surface [nucleotide binding]; other site 1249661006939 anticodon binding site; other site 1249661006940 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1249661006941 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1249661006942 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1249661006943 active site 1249661006944 tetramer interface; other site 1249661006945 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1249661006946 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1249661006947 CHASE2 domain; Region: CHASE2; pfam05226 1249661006948 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1249661006949 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 1249661006950 dimer interface [polypeptide binding]; other site 1249661006951 phosphorylation site [posttranslational modification] 1249661006952 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 1249661006953 ATP binding site [chemical binding]; other site 1249661006954 Mg2+ binding site [ion binding]; other site 1249661006955 G-X-G motif; other site 1249661006956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1249661006957 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249661006958 FecR protein; Region: FecR; pfam04773 1249661006959 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661006960 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 1249661006961 active site 1249661006962 phosphorylation site [posttranslational modification] 1249661006963 intermolecular recognition site; other site 1249661006964 dimerization interface [polypeptide binding]; other site 1249661006965 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 1249661006966 DNA binding site [nucleotide binding] 1249661006967 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661006968 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 1249661006969 CPxP motif; other site 1249661006970 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1249661006971 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249661006972 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1249661006973 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1249661006974 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249661006975 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1249661006976 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249661006977 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249661006978 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 1249661006979 putative active site [active] 1249661006980 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1249661006981 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249661006982 putative ligand binding site [chemical binding]; other site 1249661006983 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661006984 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 1249661006985 TM-ABC transporter signature motif; other site 1249661006986 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1249661006987 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661006988 Walker A/P-loop; other site 1249661006989 ATP binding site [chemical binding]; other site 1249661006990 Q-loop/lid; other site 1249661006991 ABC transporter signature motif; other site 1249661006992 Walker B; other site 1249661006993 D-loop; other site 1249661006994 H-loop/switch region; other site 1249661006995 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661006996 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 1249661006997 substrate binding site [chemical binding]; other site 1249661006998 ATP binding site [chemical binding]; other site 1249661006999 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1249661007000 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1249661007001 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1249661007002 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249661007003 dimer interface [polypeptide binding]; other site 1249661007004 PYR/PP interface [polypeptide binding]; other site 1249661007005 TPP binding site [chemical binding]; other site 1249661007006 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249661007007 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1249661007008 TPP-binding site [chemical binding]; other site 1249661007009 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1249661007010 KduI/IolB family; Region: KduI; pfam04962 1249661007011 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1249661007012 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1249661007013 Walker A/P-loop; other site 1249661007014 ATP binding site [chemical binding]; other site 1249661007015 Q-loop/lid; other site 1249661007016 ABC transporter signature motif; other site 1249661007017 Walker B; other site 1249661007018 D-loop; other site 1249661007019 H-loop/switch region; other site 1249661007020 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1249661007021 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 1249661007022 TM-ABC transporter signature motif; other site 1249661007023 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1249661007024 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1249661007025 Walker A/P-loop; other site 1249661007026 ATP binding site [chemical binding]; other site 1249661007027 Q-loop/lid; other site 1249661007028 ABC transporter signature motif; other site 1249661007029 Walker B; other site 1249661007030 D-loop; other site 1249661007031 H-loop/switch region; other site 1249661007032 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 1249661007033 TM-ABC transporter signature motif; other site 1249661007034 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 1249661007035 active site 1249661007036 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1249661007037 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1249661007038 putative active site [active] 1249661007039 metal binding site [ion binding]; metal-binding site 1249661007040 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1249661007041 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 1249661007042 nudix motif; other site 1249661007043 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1249661007044 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1249661007045 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 1249661007046 protein binding site [polypeptide binding]; other site 1249661007047 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 1249661007048 protein binding site [polypeptide binding]; other site 1249661007049 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661007051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661007052 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 1249661007053 dimerization interface [polypeptide binding]; other site 1249661007054 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1249661007055 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 1249661007056 motif 1; other site 1249661007057 active site 1249661007058 motif 2; other site 1249661007059 motif 3; other site 1249661007060 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1249661007061 DHHA1 domain; Region: DHHA1; pfam02272 1249661007062 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661007063 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661007064 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1249661007065 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249661007066 active site 1249661007067 HIGH motif; other site 1249661007068 nucleotide binding site [chemical binding]; other site 1249661007069 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1249661007070 KMSKS motif; other site 1249661007071 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1249661007072 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 1249661007073 nudix motif; other site 1249661007074 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1249661007075 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1249661007076 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1249661007077 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1249661007078 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 1249661007079 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 1249661007080 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661007081 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661007082 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661007083 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661007084 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1249661007085 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1249661007086 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1249661007087 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1249661007088 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661007089 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 1249661007090 active site 1249661007091 phosphorylation site [posttranslational modification] 1249661007092 intermolecular recognition site; other site 1249661007093 dimerization interface [polypeptide binding]; other site 1249661007094 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 1249661007095 DNA binding residues [nucleotide binding] 1249661007096 dimerization interface [polypeptide binding]; other site 1249661007097 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 1249661007098 dimer interface [polypeptide binding]; other site 1249661007099 phosphorylation site [posttranslational modification] 1249661007100 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 1249661007101 ATP binding site [chemical binding]; other site 1249661007102 Mg2+ binding site [ion binding]; other site 1249661007103 G-X-G motif; other site 1249661007104 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661007105 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 1249661007106 active site 1249661007107 phosphorylation site [posttranslational modification] 1249661007108 intermolecular recognition site; other site 1249661007109 dimerization interface [polypeptide binding]; other site 1249661007110 Spore Coat Protein U domain; Region: SCPU; pfam05229 1249661007111 Spore Coat Protein U domain; Region: SCPU; pfam05229 1249661007112 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1249661007113 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1249661007114 PapC C-terminal domain; Region: PapC_C; pfam13953 1249661007115 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1249661007116 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1249661007117 Spore Coat Protein U domain; Region: SCPU; pfam05229 1249661007118 Spore Coat Protein U domain; Region: SCPU; pfam05229 1249661007119 Spore Coat Protein U domain; Region: SCPU; pfam05229 1249661007120 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661007121 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661007122 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 1249661007123 dimerization interface [polypeptide binding]; other site 1249661007124 substrate binding pocket [chemical binding]; other site 1249661007125 benzoate transport; Region: 2A0115; TIGR00895 1249661007126 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007127 putative substrate translocation pore; other site 1249661007128 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1249661007129 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 1249661007130 active site 1249661007131 H-NS histone family; Region: Histone_HNS; pfam00816 1249661007132 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1249661007133 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1249661007134 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1249661007135 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1249661007136 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661007137 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 1249661007138 putative dimerization interface [polypeptide binding]; other site 1249661007139 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1249661007140 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1249661007141 active site 2 [active] 1249661007142 active site 1 [active] 1249661007143 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661007144 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661007145 active site 1249661007146 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661007147 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661007148 benzoate transport; Region: 2A0115; TIGR00895 1249661007149 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007150 putative substrate translocation pore; other site 1249661007151 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007152 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1249661007153 manganese transport protein MntH; Reviewed; Region: PRK00701 1249661007154 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1249661007155 Esterase/lipase [General function prediction only]; Region: COG1647 1249661007156 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1249661007157 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 1249661007158 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1249661007159 Interdomain contacts; other site 1249661007160 Cytokine receptor motif; other site 1249661007161 mce related protein; Region: MCE; pfam02470 1249661007162 mce related protein; Region: MCE; pfam02470 1249661007163 mce related protein; Region: MCE; pfam02470 1249661007164 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1249661007165 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661007166 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661007167 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 1249661007168 active site 1249661007169 Int/Topo IB signature motif; other site 1249661007170 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007171 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249661007172 putative substrate translocation pore; other site 1249661007173 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249661007174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661007175 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 1249661007176 dimerization interface [polypeptide binding]; other site 1249661007177 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 1249661007178 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1249661007179 active site 1249661007180 catalytic residues [active] 1249661007181 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249661007182 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1249661007183 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249661007184 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1249661007185 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 1249661007186 active site 1249661007187 acyl-activating enzyme (AAE) consensus motif; other site 1249661007188 putative CoA binding site [chemical binding]; other site 1249661007189 AMP binding site [chemical binding]; other site 1249661007190 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1249661007191 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1249661007192 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1249661007193 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1249661007194 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 1249661007195 catalytic core [active] 1249661007196 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 1249661007197 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1249661007198 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1249661007199 polyphosphate kinase; Provisional; Region: PRK05443 1249661007200 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1249661007201 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1249661007202 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1249661007203 putative active site [active] 1249661007204 catalytic site [active] 1249661007205 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1249661007206 putative domain interface [polypeptide binding]; other site 1249661007207 putative active site [active] 1249661007208 catalytic site [active] 1249661007209 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1249661007210 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 1249661007211 dimer interface [polypeptide binding]; other site 1249661007212 phosphorylation site [posttranslational modification] 1249661007213 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 1249661007214 ATP binding site [chemical binding]; other site 1249661007215 Mg2+ binding site [ion binding]; other site 1249661007216 G-X-G motif; other site 1249661007217 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1249661007218 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 1249661007219 active site 1249661007220 phosphorylation site [posttranslational modification] 1249661007221 intermolecular recognition site; other site 1249661007222 dimerization interface [polypeptide binding]; other site 1249661007223 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 1249661007224 DNA binding site [nucleotide binding] 1249661007225 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1249661007226 PhoU domain; Region: PhoU; pfam01895 1249661007227 PhoU domain; Region: PhoU; pfam01895 1249661007228 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1249661007229 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1249661007230 Walker A/P-loop; other site 1249661007231 ATP binding site [chemical binding]; other site 1249661007232 Q-loop/lid; other site 1249661007233 ABC transporter signature motif; other site 1249661007234 Walker B; other site 1249661007235 D-loop; other site 1249661007236 H-loop/switch region; other site 1249661007237 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1249661007238 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 1249661007239 dimer interface [polypeptide binding]; other site 1249661007240 conserved gate region; other site 1249661007241 putative PBP binding loops; other site 1249661007242 ABC-ATPase subunit interface; other site 1249661007243 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1249661007244 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 1249661007245 dimer interface [polypeptide binding]; other site 1249661007246 conserved gate region; other site 1249661007247 putative PBP binding loops; other site 1249661007248 ABC-ATPase subunit interface; other site 1249661007249 PBP superfamily domain; Region: PBP_like_2; cl17296 1249661007250 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1249661007251 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 1249661007252 active site 1249661007253 substrate binding site [chemical binding]; other site 1249661007254 metal binding site [ion binding]; metal-binding site 1249661007255 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 1249661007256 dihydropteroate synthase; Region: DHPS; TIGR01496 1249661007257 substrate binding pocket [chemical binding]; other site 1249661007258 dimer interface [polypeptide binding]; other site 1249661007259 inhibitor binding site; inhibition site 1249661007260 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1249661007261 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 1249661007262 Walker A motif; other site 1249661007263 ATP binding site [chemical binding]; other site 1249661007264 Walker B motif; other site 1249661007265 arginine finger; other site 1249661007266 Peptidase family M41; Region: Peptidase_M41; pfam01434 1249661007267 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1249661007268 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1249661007269 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1249661007270 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1249661007271 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1249661007272 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1249661007273 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1249661007274 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1249661007275 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249661007276 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1249661007277 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1249661007278 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249661007279 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249661007280 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 1249661007281 IMP binding site; other site 1249661007282 dimer interface [polypeptide binding]; other site 1249661007283 interdomain contacts; other site 1249661007284 partial ornithine binding site; other site 1249661007285 leucine export protein LeuE; Provisional; Region: PRK10958 1249661007286 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1249661007287 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1249661007288 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1249661007289 catalytic site [active] 1249661007290 subunit interface [polypeptide binding]; other site 1249661007291 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007292 putative substrate translocation pore; other site 1249661007293 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1249661007294 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 1249661007295 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249661007296 catalytic residue [active] 1249661007297 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1249661007298 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249661007299 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1249661007300 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1249661007301 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 1249661007302 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1249661007303 RNA/DNA hybrid binding site [nucleotide binding]; other site 1249661007304 active site 1249661007305 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1249661007306 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 1249661007307 active site 1249661007308 catalytic site [active] 1249661007309 substrate binding site [chemical binding]; other site 1249661007310 hypothetical protein; Provisional; Region: PRK02237 1249661007311 proline/glycine betaine transporter; Provisional; Region: PRK10642 1249661007312 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007313 putative substrate translocation pore; other site 1249661007314 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661007315 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 1249661007316 C-terminal domain interface [polypeptide binding]; other site 1249661007317 GSH binding site (G-site) [chemical binding]; other site 1249661007318 dimer interface [polypeptide binding]; other site 1249661007319 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1249661007320 N-terminal domain interface [polypeptide binding]; other site 1249661007321 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1249661007322 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661007323 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1249661007324 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1249661007325 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 1249661007326 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1249661007327 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 1249661007328 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1249661007329 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 1249661007330 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1249661007331 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1249661007332 Malonate transporter MadL subunit; Region: MadL; cl04273 1249661007333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661007334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661007335 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 1249661007336 dimerization interface [polypeptide binding]; other site 1249661007337 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1249661007338 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1249661007339 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1249661007340 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1249661007341 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 1249661007342 active site 1249661007343 substrate-binding site [chemical binding]; other site 1249661007344 metal-binding site [ion binding] 1249661007345 GTP binding site [chemical binding]; other site 1249661007346 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1249661007347 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 1249661007348 putative dimer interface [polypeptide binding]; other site 1249661007349 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1249661007350 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 1249661007351 putative dimer interface [polypeptide binding]; other site 1249661007352 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249661007353 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1249661007354 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 1249661007355 short chain dehydrogenase; Provisional; Region: PRK12744 1249661007356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661007357 NAD(P) binding site [chemical binding]; other site 1249661007358 active site 1249661007359 transcriptional regulator; Provisional; Region: PRK10632 1249661007360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661007361 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 1249661007362 putative effector binding pocket; other site 1249661007363 putative dimerization interface [polypeptide binding]; other site 1249661007364 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1249661007365 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1249661007366 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1249661007367 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 1249661007368 dimerization interface [polypeptide binding]; other site 1249661007369 putative DNA binding site [nucleotide binding]; other site 1249661007370 putative Zn2+ binding site [ion binding]; other site 1249661007371 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 1249661007372 active site residue [active] 1249661007373 DsrE/DsrF-like family; Region: DrsE; cl00672 1249661007374 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1249661007375 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 1249661007376 glutaminase active site [active] 1249661007377 T5orf172 domain; Region: T5orf172; cl17462 1249661007378 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 1249661007379 dimer interface [polypeptide binding]; other site 1249661007380 active site 1249661007381 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 1249661007382 dimer interface [polypeptide binding]; other site 1249661007383 active site 1249661007384 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661007385 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 1249661007386 putative DNA binding site [nucleotide binding]; other site 1249661007387 putative Zn2+ binding site [ion binding]; other site 1249661007388 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661007389 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 1249661007390 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661007391 DNA-binding site [nucleotide binding]; DNA binding site 1249661007392 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 1249661007393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661007394 homodimer interface [polypeptide binding]; other site 1249661007395 catalytic residue [active] 1249661007396 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1249661007397 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 1249661007398 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1249661007399 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1249661007400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1249661007401 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661007402 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661007403 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1249661007404 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1249661007405 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 1249661007406 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1249661007407 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 1249661007408 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661007409 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661007410 metal binding site [ion binding]; metal-binding site 1249661007411 active site 1249661007412 I-site; other site 1249661007413 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249661007414 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249661007415 DNA binding site [nucleotide binding] 1249661007416 domain linker motif; other site 1249661007417 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 1249661007418 putative dimerization interface [polypeptide binding]; other site 1249661007419 putative ligand binding site [chemical binding]; other site 1249661007420 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1249661007421 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249661007422 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 1249661007423 dimer interface [polypeptide binding]; other site 1249661007424 conserved gate region; other site 1249661007425 ABC-ATPase subunit interface; other site 1249661007426 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661007427 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 1249661007428 putative PBP binding loops; other site 1249661007429 ABC-ATPase subunit interface; other site 1249661007430 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249661007431 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661007432 Walker A/P-loop; other site 1249661007433 ATP binding site [chemical binding]; other site 1249661007434 Q-loop/lid; other site 1249661007435 ABC transporter signature motif; other site 1249661007436 Walker B; other site 1249661007437 D-loop; other site 1249661007438 H-loop/switch region; other site 1249661007439 TOBE domain; Region: TOBE_2; pfam08402 1249661007440 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1249661007441 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249661007442 active site 1249661007443 metal binding site [ion binding]; metal-binding site 1249661007444 hexamer interface [polypeptide binding]; other site 1249661007445 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1249661007446 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1249661007447 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1249661007448 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1249661007449 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007450 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1249661007451 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1249661007452 EamA-like transporter family; Region: EamA; pfam00892 1249661007453 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1249661007454 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 1249661007455 Moco binding site; other site 1249661007456 metal coordination site [ion binding]; other site 1249661007457 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1249661007458 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 1249661007459 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1249661007460 ThiC-associated domain; Region: ThiC-associated; pfam13667 1249661007461 ThiC family; Region: ThiC; pfam01964 1249661007462 EamA-like transporter family; Region: EamA; pfam00892 1249661007463 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1249661007464 EamA-like transporter family; Region: EamA; pfam00892 1249661007465 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 1249661007466 hypothetical protein; Provisional; Region: PRK09256 1249661007467 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1249661007468 AAA domain; Region: AAA_30; pfam13604 1249661007469 Family description; Region: UvrD_C_2; pfam13538 1249661007470 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1249661007471 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1249661007472 Family description; Region: UvrD_C_2; pfam13538 1249661007473 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1249661007474 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1249661007475 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1249661007476 Predicted membrane protein [Function unknown]; Region: COG1289 1249661007477 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1249661007478 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1249661007479 putative proline-specific permease; Provisional; Region: proY; PRK10580 1249661007480 Spore germination protein; Region: Spore_permease; cl17796 1249661007481 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1249661007482 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249661007483 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249661007484 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 1249661007485 ABC-ATPase subunit interface; other site 1249661007486 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249661007487 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 1249661007488 putative PBP binding loops; other site 1249661007489 ABC-ATPase subunit interface; other site 1249661007490 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1249661007491 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1249661007492 Walker A/P-loop; other site 1249661007493 ATP binding site [chemical binding]; other site 1249661007494 Q-loop/lid; other site 1249661007495 ABC transporter signature motif; other site 1249661007496 Walker B; other site 1249661007497 D-loop; other site 1249661007498 H-loop/switch region; other site 1249661007499 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661007500 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 1249661007501 putative DNA binding site [nucleotide binding]; other site 1249661007502 putative Zn2+ binding site [ion binding]; other site 1249661007503 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661007504 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1249661007505 Predicted flavoprotein [General function prediction only]; Region: COG0431 1249661007506 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1249661007507 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1249661007508 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1249661007509 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1249661007510 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1249661007511 NAD binding site [chemical binding]; other site 1249661007512 putative active site [active] 1249661007513 substrate binding site [chemical binding]; other site 1249661007514 Predicted transcriptional regulator [Transcription]; Region: COG1959 1249661007515 Transcriptional regulator; Region: Rrf2; pfam02082 1249661007516 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1249661007517 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249661007518 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661007519 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661007520 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1249661007521 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661007522 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661007523 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1249661007524 Protein export membrane protein; Region: SecD_SecF; cl14618 1249661007525 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1249661007526 Protein export membrane protein; Region: SecD_SecF; cl14618 1249661007527 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1249661007528 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1249661007529 NAD(P) binding site [chemical binding]; other site 1249661007530 putative active site [active] 1249661007531 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1249661007532 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 1249661007533 catalytic triad [active] 1249661007534 PAS domain; Region: PAS_9; pfam13426 1249661007535 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 1249661007536 putative active site [active] 1249661007537 heme pocket [chemical binding]; other site 1249661007538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661007539 metal binding site [ion binding]; metal-binding site 1249661007540 active site 1249661007541 I-site; other site 1249661007542 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 1249661007543 HDOD domain; Region: HDOD; pfam08668 1249661007544 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1249661007545 Cytochrome c; Region: Cytochrom_C; cl11414 1249661007546 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 1249661007547 Putative D-pathway homolog; other site 1249661007548 Low-spin heme binding site [chemical binding]; other site 1249661007549 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1249661007550 Subunit I/II interface [polypeptide binding]; other site 1249661007551 Putative Q-pathway; other site 1249661007552 Putative alternate electron transfer pathway; other site 1249661007553 Putative water exit pathway; other site 1249661007554 Binuclear center (active site) [active] 1249661007555 Putative K-pathway homolog; other site 1249661007556 Putative proton exit pathway; other site 1249661007557 Subunit I/IIa interface [polypeptide binding]; other site 1249661007558 Electron transfer pathway; other site 1249661007559 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1249661007560 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1249661007561 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661007562 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661007563 Cytochrome c; Region: Cytochrom_C; pfam00034 1249661007564 Cytochrome c; Region: Cytochrom_C; cl11414 1249661007565 Cytochrome c; Region: Cytochrom_C; cl11414 1249661007566 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1249661007567 catalytic motif [active] 1249661007568 Catalytic residue [active] 1249661007569 Aspartyl protease; Region: Asp_protease_2; pfam13650 1249661007570 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 1249661007571 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1249661007572 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 1249661007573 substrate binding pocket [chemical binding]; other site 1249661007574 membrane-bound complex binding site; other site 1249661007575 hinge residues; other site 1249661007576 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1249661007577 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1249661007578 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1249661007579 ligand binding site [chemical binding]; other site 1249661007580 NAD binding site [chemical binding]; other site 1249661007581 tetramer interface [polypeptide binding]; other site 1249661007582 catalytic site [active] 1249661007583 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1249661007584 L-serine binding site [chemical binding]; other site 1249661007585 ACT domain interface; other site 1249661007586 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1249661007587 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661007588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661007589 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1249661007590 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1249661007591 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1249661007592 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 1249661007593 active site 1249661007594 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1249661007595 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1249661007596 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 1249661007597 active site 1249661007598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249661007599 HTH-like domain; Region: HTH_21; pfam13276 1249661007600 Integrase core domain; Region: rve; pfam00665 1249661007601 Integrase core domain; Region: rve_3; pfam13683 1249661007602 Transposase; Region: HTH_Tnp_1; pfam01527 1249661007603 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 1249661007604 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661007605 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 1249661007606 active site 1249661007607 phosphorylation site [posttranslational modification] 1249661007608 intermolecular recognition site; other site 1249661007609 dimerization interface [polypeptide binding]; other site 1249661007610 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 1249661007611 DNA binding residues [nucleotide binding] 1249661007612 dimerization interface [polypeptide binding]; other site 1249661007613 Predicted membrane protein [Function unknown]; Region: COG3235 1249661007614 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1249661007615 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1249661007616 putative active site [active] 1249661007617 Zn binding site [ion binding]; other site 1249661007618 hypothetical protein; Validated; Region: PRK02101 1249661007619 PIN domain; Region: PIN_3; pfam13470 1249661007620 PIN domain; Region: PIN_3; cl17397 1249661007621 methionine aminotransferase; Validated; Region: PRK09082 1249661007622 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 1249661007623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661007624 homodimer interface [polypeptide binding]; other site 1249661007625 catalytic residue [active] 1249661007626 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661007627 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 1249661007628 C-terminal domain interface [polypeptide binding]; other site 1249661007629 GSH binding site (G-site) [chemical binding]; other site 1249661007630 dimer interface [polypeptide binding]; other site 1249661007631 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 1249661007632 putative N-terminal domain interface [polypeptide binding]; other site 1249661007633 putative dimer interface [polypeptide binding]; other site 1249661007634 putative substrate binding pocket (H-site) [chemical binding]; other site 1249661007635 enoyl-CoA hydratase; Provisional; Region: PRK07511 1249661007636 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 1249661007637 substrate binding site [chemical binding]; other site 1249661007638 oxyanion hole (OAH) forming residues; other site 1249661007639 trimer interface [polypeptide binding]; other site 1249661007640 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 1249661007641 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 1249661007642 catalytic core [active] 1249661007643 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 1249661007644 putative active site [active] 1249661007645 putative substrate binding site [chemical binding]; other site 1249661007646 ATP binding site [chemical binding]; other site 1249661007647 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661007648 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1249661007649 FAD binding site [chemical binding]; other site 1249661007650 substrate binding site [chemical binding]; other site 1249661007651 catalytic base [active] 1249661007652 Right handed beta helix region; Region: Beta_helix; pfam13229 1249661007653 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 1249661007654 putative active site [active] 1249661007655 putative catalytic site [active] 1249661007656 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 1249661007657 putative active site [active] 1249661007658 putative catalytic site [active] 1249661007659 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1249661007660 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1249661007661 active site 1249661007662 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1249661007663 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1249661007664 FAD binding site [chemical binding]; other site 1249661007665 substrate binding site [chemical binding]; other site 1249661007666 catalytic base [active] 1249661007667 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 1249661007668 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 1249661007669 dimer interface [polypeptide binding]; other site 1249661007670 ADP-ribose binding site [chemical binding]; other site 1249661007671 active site 1249661007672 nudix motif; other site 1249661007673 metal binding site [ion binding]; metal-binding site 1249661007674 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 1249661007675 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1249661007676 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1249661007677 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1249661007678 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1249661007679 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1249661007680 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1249661007681 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1249661007682 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1249661007683 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1249661007684 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1249661007685 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1249661007686 4Fe-4S binding domain; Region: Fer4; pfam00037 1249661007687 4Fe-4S binding domain; Region: Fer4; pfam00037 1249661007688 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1249661007689 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1249661007690 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 1249661007691 catalytic loop [active] 1249661007692 iron binding site [ion binding]; other site 1249661007693 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1249661007694 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 1249661007695 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1249661007696 SLBB domain; Region: SLBB; pfam10531 1249661007697 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1249661007698 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1249661007699 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 1249661007700 putative dimer interface [polypeptide binding]; other site 1249661007701 [2Fe-2S] cluster binding site [ion binding]; other site 1249661007702 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1249661007703 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1249661007704 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1249661007705 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1249661007706 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1249661007707 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1249661007708 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1249661007709 triosephosphate isomerase; Provisional; Region: PRK14567 1249661007710 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 1249661007711 substrate binding site [chemical binding]; other site 1249661007712 dimer interface [polypeptide binding]; other site 1249661007713 catalytic triad [active] 1249661007714 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1249661007715 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1249661007716 NAD(P) binding site [chemical binding]; other site 1249661007717 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1249661007718 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1249661007719 RNase E interface [polypeptide binding]; other site 1249661007720 trimer interface [polypeptide binding]; other site 1249661007721 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1249661007722 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1249661007723 RNase E interface [polypeptide binding]; other site 1249661007724 trimer interface [polypeptide binding]; other site 1249661007725 active site 1249661007726 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 1249661007727 putative nucleic acid binding region [nucleotide binding]; other site 1249661007728 G-X-X-G motif; other site 1249661007729 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 1249661007730 RNA binding site [nucleotide binding]; other site 1249661007731 domain interface; other site 1249661007732 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 1249661007733 16S/18S rRNA binding site [nucleotide binding]; other site 1249661007734 S13e-L30e interaction site [polypeptide binding]; other site 1249661007735 25S rRNA binding site [nucleotide binding]; other site 1249661007736 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1249661007737 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1249661007738 putative ligand binding site [chemical binding]; other site 1249661007739 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 1249661007740 active site clefts [active] 1249661007741 zinc binding site [ion binding]; other site 1249661007742 dimer interface [polypeptide binding]; other site 1249661007743 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1249661007744 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1249661007745 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249661007746 2-isopropylmalate synthase; Validated; Region: PRK00915 1249661007747 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1249661007748 active site 1249661007749 catalytic residues [active] 1249661007750 metal binding site [ion binding]; metal-binding site 1249661007751 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1249661007752 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1249661007753 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1249661007754 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1249661007755 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1249661007756 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1249661007757 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1249661007758 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1249661007759 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1249661007760 putative valine binding site [chemical binding]; other site 1249661007761 dimer interface [polypeptide binding]; other site 1249661007762 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1249661007763 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1249661007764 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249661007765 PYR/PP interface [polypeptide binding]; other site 1249661007766 dimer interface [polypeptide binding]; other site 1249661007767 TPP binding site [chemical binding]; other site 1249661007768 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249661007769 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 1249661007770 TPP-binding site [chemical binding]; other site 1249661007771 dimer interface [polypeptide binding]; other site 1249661007772 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661007773 RNA polymerase factor sigma-70; Validated; Region: PRK09047 1249661007774 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 1249661007775 DNA binding residues [nucleotide binding] 1249661007776 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 1249661007777 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 1249661007778 RDD family; Region: RDD; pfam06271 1249661007779 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1249661007780 putative active site [active] 1249661007781 putative metal binding site [ion binding]; other site 1249661007782 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661007783 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 1249661007784 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1249661007785 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661007786 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661007787 Bacterial transcriptional repressor; Region: TetR; pfam13972 1249661007788 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1249661007789 glucose-1-dehydrogenase; Provisional; Region: PRK06947 1249661007790 classical (c) SDRs; Region: SDR_c; cd05233 1249661007791 NAD(P) binding site [chemical binding]; other site 1249661007792 active site 1249661007793 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1249661007794 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249661007795 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007796 putative substrate translocation pore; other site 1249661007797 amidase; Provisional; Region: PRK07042 1249661007798 Amidase; Region: Amidase; cl11426 1249661007799 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1249661007800 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1249661007801 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1249661007802 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 1249661007803 apolar tunnel; other site 1249661007804 heme binding site [chemical binding]; other site 1249661007805 dimerization interface [polypeptide binding]; other site 1249661007806 FtsX-like permease family; Region: FtsX; pfam02687 1249661007807 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1249661007808 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1249661007809 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1249661007810 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1249661007811 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1249661007812 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 1249661007813 active site 1249661007814 phosphorylation site [posttranslational modification] 1249661007815 intermolecular recognition site; other site 1249661007816 dimerization interface [polypeptide binding]; other site 1249661007817 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 1249661007818 DNA binding site [nucleotide binding] 1249661007819 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1249661007820 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1249661007821 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 1249661007822 Ligand Binding Site [chemical binding]; other site 1249661007823 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1249661007824 GAF domain; Region: GAF_3; pfam13492 1249661007825 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 1249661007826 dimer interface [polypeptide binding]; other site 1249661007827 phosphorylation site [posttranslational modification] 1249661007828 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 1249661007829 ATP binding site [chemical binding]; other site 1249661007830 Mg2+ binding site [ion binding]; other site 1249661007831 G-X-G motif; other site 1249661007832 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1249661007833 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1249661007834 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1249661007835 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1249661007836 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1249661007837 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1249661007838 NADP binding site [chemical binding]; other site 1249661007839 dimer interface [polypeptide binding]; other site 1249661007840 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1249661007841 active site 1249661007842 dimer interfaces [polypeptide binding]; other site 1249661007843 catalytic residues [active] 1249661007844 short chain dehydrogenase; Provisional; Region: PRK08339 1249661007845 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1249661007846 putative NAD(P) binding site [chemical binding]; other site 1249661007847 putative active site [active] 1249661007848 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661007849 active site 1249661007850 hypothetical protein; Validated; Region: PRK00110 1249661007851 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1249661007852 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1249661007853 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1249661007854 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1249661007855 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1249661007856 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1249661007857 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1249661007858 active site 1249661007859 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1249661007860 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1249661007861 Maf-like protein; Region: Maf; pfam02545 1249661007862 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 1249661007863 active site 1249661007864 dimer interface [polypeptide binding]; other site 1249661007865 ribonuclease G; Provisional; Region: PRK11712 1249661007866 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 1249661007867 homodimer interface [polypeptide binding]; other site 1249661007868 oligonucleotide binding site [chemical binding]; other site 1249661007869 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 1249661007870 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1249661007871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661007872 Coenzyme A binding pocket [chemical binding]; other site 1249661007873 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1249661007874 Pectinacetylesterase; Region: PAE; pfam03283 1249661007875 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 1249661007876 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1249661007877 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661007878 putative substrate translocation pore; other site 1249661007879 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661007880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661007881 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 1249661007882 dimerization interface [polypeptide binding]; other site 1249661007883 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 1249661007884 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661007885 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 1249661007886 DNA binding residues [nucleotide binding] 1249661007887 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1249661007888 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1249661007889 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661007890 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1249661007891 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1249661007892 putative metal binding site; other site 1249661007893 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249661007894 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 1249661007895 putative active site [active] 1249661007896 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661007897 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 1249661007898 putative ADP-binding pocket [chemical binding]; other site 1249661007899 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1249661007900 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249661007901 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 1249661007902 putative active site [active] 1249661007903 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1249661007904 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 1249661007905 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1249661007906 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249661007907 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1249661007908 Walker A/P-loop; other site 1249661007909 ATP binding site [chemical binding]; other site 1249661007910 Q-loop/lid; other site 1249661007911 ABC transporter signature motif; other site 1249661007912 Walker B; other site 1249661007913 D-loop; other site 1249661007914 H-loop/switch region; other site 1249661007915 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1249661007916 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1249661007917 putative active site [active] 1249661007918 putative PHP Thumb interface [polypeptide binding]; other site 1249661007919 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 1249661007920 generic binding surface II; other site 1249661007921 generic binding surface I; other site 1249661007922 rhodanese superfamily protein; Provisional; Region: PRK05320 1249661007923 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1249661007924 active site residue [active] 1249661007925 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1249661007926 active site 1249661007927 HIGH motif; other site 1249661007928 nucleotide binding site [chemical binding]; other site 1249661007929 active site 1249661007930 KMSKS motif; other site 1249661007931 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 1249661007932 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1249661007933 ATP binding site [chemical binding]; other site 1249661007934 Mg++ binding site [ion binding]; other site 1249661007935 motif III; other site 1249661007936 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 1249661007937 nucleotide binding region [chemical binding]; other site 1249661007938 ATP-binding site [chemical binding]; other site 1249661007939 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661007940 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661007941 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661007942 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661007943 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1249661007944 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1249661007945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661007946 ATP-grasp domain; Region: ATP-grasp; pfam02222 1249661007947 META domain; Region: META; pfam03724 1249661007948 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1249661007949 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1249661007950 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1249661007951 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1249661007952 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1249661007953 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1249661007954 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1249661007955 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1249661007956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661007957 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661007958 ferredoxin; Provisional; Region: PRK06991 1249661007959 Putative Fe-S cluster; Region: FeS; pfam04060 1249661007960 4Fe-4S binding domain; Region: Fer4; pfam00037 1249661007961 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1249661007962 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1249661007963 minor groove reading motif; other site 1249661007964 helix-hairpin-helix signature motif; other site 1249661007965 substrate binding pocket [chemical binding]; other site 1249661007966 active site 1249661007967 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1249661007968 EamA-like transporter family; Region: EamA; pfam00892 1249661007969 EamA-like transporter family; Region: EamA; pfam00892 1249661007970 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1249661007971 Cytochrome c; Region: Cytochrom_C; cl11414 1249661007972 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1249661007973 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1249661007974 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 1249661007975 Walker A motif; other site 1249661007976 ATP binding site [chemical binding]; other site 1249661007977 Walker B motif; other site 1249661007978 arginine finger; other site 1249661007979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1249661007980 Benzoate membrane transport protein; Region: BenE; pfam03594 1249661007981 benzoate transporter; Region: benE; TIGR00843 1249661007982 transaldolase-like protein; Provisional; Region: PTZ00411 1249661007983 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1249661007984 active site 1249661007985 dimer interface [polypeptide binding]; other site 1249661007986 catalytic residue [active] 1249661007987 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 1249661007988 dimer interface [polypeptide binding]; other site 1249661007989 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661007990 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1249661007991 Na binding site [ion binding]; other site 1249661007992 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 1249661007993 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 1249661007994 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1249661007995 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1249661007996 putative active site [active] 1249661007997 Chorismate lyase; Region: Chor_lyase; cl01230 1249661007998 heat shock protein 90; Provisional; Region: PRK05218 1249661007999 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 1249661008000 ATP binding site [chemical binding]; other site 1249661008001 Mg2+ binding site [ion binding]; other site 1249661008002 G-X-G motif; other site 1249661008003 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 1249661008004 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661008005 DNA-binding site [nucleotide binding]; DNA binding site 1249661008006 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 1249661008007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661008008 homodimer interface [polypeptide binding]; other site 1249661008009 catalytic residue [active] 1249661008010 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1249661008011 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249661008012 EamA-like transporter family; Region: EamA; pfam00892 1249661008013 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1249661008014 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 1249661008015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661008016 homodimer interface [polypeptide binding]; other site 1249661008017 catalytic residue [active] 1249661008018 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 1249661008019 homotrimer interaction site [polypeptide binding]; other site 1249661008020 putative active site [active] 1249661008021 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1249661008022 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1249661008023 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661008024 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661008025 metal binding site [ion binding]; metal-binding site 1249661008026 active site 1249661008027 I-site; other site 1249661008028 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 1249661008029 Chromate transporter; Region: Chromate_transp; pfam02417 1249661008030 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1249661008031 Chromate transporter; Region: Chromate_transp; pfam02417 1249661008032 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1249661008033 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1249661008034 active site 1249661008035 Zn binding site [ion binding]; other site 1249661008036 allantoate amidohydrolase; Reviewed; Region: PRK12893 1249661008037 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1249661008038 active site 1249661008039 metal binding site [ion binding]; metal-binding site 1249661008040 dimer interface [polypeptide binding]; other site 1249661008041 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249661008042 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661008043 putative substrate translocation pore; other site 1249661008044 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661008045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661008046 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 1249661008047 dimerization interface [polypeptide binding]; other site 1249661008048 Predicted membrane protein [Function unknown]; Region: COG4125 1249661008049 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1249661008050 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1249661008051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661008052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661008053 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 1249661008054 dimerization interface [polypeptide binding]; other site 1249661008055 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1249661008056 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 1249661008057 CAP-like domain; other site 1249661008058 active site 1249661008059 primary dimer interface [polypeptide binding]; other site 1249661008060 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1249661008061 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 1249661008062 ATP binding site [chemical binding]; other site 1249661008063 Mg2+ binding site [ion binding]; other site 1249661008064 G-X-G motif; other site 1249661008065 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 1249661008066 anchoring element; other site 1249661008067 dimer interface [polypeptide binding]; other site 1249661008068 ATP binding site [chemical binding]; other site 1249661008069 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 1249661008070 active site 1249661008071 metal binding site [ion binding]; metal-binding site 1249661008072 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1249661008073 ABC transporter ATPase component; Reviewed; Region: PRK11147 1249661008074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661008075 Walker A/P-loop; other site 1249661008076 ATP binding site [chemical binding]; other site 1249661008077 Q-loop/lid; other site 1249661008078 ABC transporter signature motif; other site 1249661008079 Walker B; other site 1249661008080 D-loop; other site 1249661008081 H-loop/switch region; other site 1249661008082 ABC transporter; Region: ABC_tran_2; pfam12848 1249661008083 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249661008084 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1249661008085 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 1249661008086 Rubredoxin; Region: Rubredoxin; pfam00301 1249661008087 iron binding site [ion binding]; other site 1249661008088 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 1249661008089 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 1249661008090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1249661008091 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661008092 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661008093 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1249661008094 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1249661008095 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1249661008096 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 1249661008097 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1249661008098 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1249661008099 ecotin; Provisional; Region: PRK03719 1249661008100 secondary substrate binding site; other site 1249661008101 primary substrate binding site; other site 1249661008102 inhibition loop; other site 1249661008103 dimerization interface [polypeptide binding]; other site 1249661008104 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1249661008105 substrate binding site [chemical binding]; other site 1249661008106 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661008107 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661008108 putative substrate translocation pore; other site 1249661008109 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661008110 Predicted ATPase [General function prediction only]; Region: COG3911 1249661008111 AAA domain; Region: AAA_28; pfam13521 1249661008112 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1249661008113 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 1249661008114 active site 1249661008115 homotetramer interface [polypeptide binding]; other site 1249661008116 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1249661008117 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1249661008118 Walker A/P-loop; other site 1249661008119 ATP binding site [chemical binding]; other site 1249661008120 Q-loop/lid; other site 1249661008121 ABC transporter signature motif; other site 1249661008122 Walker B; other site 1249661008123 D-loop; other site 1249661008124 H-loop/switch region; other site 1249661008125 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 1249661008126 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 1249661008127 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 1249661008128 dimer interface [polypeptide binding]; other site 1249661008129 conserved gate region; other site 1249661008130 putative PBP binding loops; other site 1249661008131 ABC-ATPase subunit interface; other site 1249661008132 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 1249661008133 dimer interface [polypeptide binding]; other site 1249661008134 conserved gate region; other site 1249661008135 putative PBP binding loops; other site 1249661008136 ABC-ATPase subunit interface; other site 1249661008137 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1249661008138 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661008139 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 1249661008140 dimer interface [polypeptide binding]; other site 1249661008141 phosphorylation site [posttranslational modification] 1249661008142 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 1249661008143 ATP binding site [chemical binding]; other site 1249661008144 Mg2+ binding site [ion binding]; other site 1249661008145 G-X-G motif; other site 1249661008146 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1249661008147 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 1249661008148 active site 1249661008149 phosphorylation site [posttranslational modification] 1249661008150 intermolecular recognition site; other site 1249661008151 dimerization interface [polypeptide binding]; other site 1249661008152 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 1249661008153 DNA binding site [nucleotide binding] 1249661008154 Pirin-related protein [General function prediction only]; Region: COG1741 1249661008155 Pirin; Region: Pirin; pfam02678 1249661008156 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1249661008157 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 1249661008158 substrate binding pocket [chemical binding]; other site 1249661008159 membrane-bound complex binding site; other site 1249661008160 hinge residues; other site 1249661008161 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661008162 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 1249661008163 dimer interface [polypeptide binding]; other site 1249661008164 conserved gate region; other site 1249661008165 putative PBP binding loops; other site 1249661008166 ABC-ATPase subunit interface; other site 1249661008167 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661008168 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 1249661008169 dimer interface [polypeptide binding]; other site 1249661008170 conserved gate region; other site 1249661008171 putative PBP binding loops; other site 1249661008172 ABC-ATPase subunit interface; other site 1249661008173 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1249661008174 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1249661008175 Walker A/P-loop; other site 1249661008176 ATP binding site [chemical binding]; other site 1249661008177 Q-loop/lid; other site 1249661008178 ABC transporter signature motif; other site 1249661008179 Walker B; other site 1249661008180 D-loop; other site 1249661008181 H-loop/switch region; other site 1249661008182 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661008183 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 1249661008184 trimer interface [polypeptide binding]; other site 1249661008185 eyelet of channel; other site 1249661008186 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1249661008187 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1249661008188 NAD synthetase; Provisional; Region: PRK13981 1249661008189 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1249661008190 multimer interface [polypeptide binding]; other site 1249661008191 active site 1249661008192 catalytic triad [active] 1249661008193 protein interface 1 [polypeptide binding]; other site 1249661008194 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 1249661008195 homodimer interface [polypeptide binding]; other site 1249661008196 NAD binding pocket [chemical binding]; other site 1249661008197 ATP binding pocket [chemical binding]; other site 1249661008198 Mg binding site [ion binding]; other site 1249661008199 active-site loop [active] 1249661008200 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1249661008201 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1249661008202 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1249661008203 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1249661008204 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1249661008205 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1249661008206 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1249661008207 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661008208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661008209 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1249661008210 GIY-YIG motif/motif A; other site 1249661008211 putative active site [active] 1249661008212 putative metal binding site [ion binding]; other site 1249661008213 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 1249661008214 dimer interface [polypeptide binding]; other site 1249661008215 substrate binding site [chemical binding]; other site 1249661008216 metal binding sites [ion binding]; metal-binding site 1249661008217 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249661008218 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1249661008219 NAD(P) binding site [chemical binding]; other site 1249661008220 catalytic residues [active] 1249661008221 catalytic residues [active] 1249661008222 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1249661008223 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1249661008224 putative NAD(P) binding site [chemical binding]; other site 1249661008225 active site 1249661008226 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1249661008227 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661008228 putative substrate translocation pore; other site 1249661008229 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1249661008230 HemY protein N-terminus; Region: HemY_N; pfam07219 1249661008231 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 1249661008232 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 1249661008233 active site 1249661008234 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1249661008235 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; cl17708 1249661008236 domain interfaces; other site 1249661008237 active site 1249661008238 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1249661008239 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1249661008240 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249661008241 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 1249661008242 S-adenosylmethionine binding site [chemical binding]; other site 1249661008243 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 1249661008244 sequence-specific DNA binding site [nucleotide binding]; other site 1249661008245 salt bridge; other site 1249661008246 PapC C-terminal domain; Region: PapC_C; pfam13953 1249661008247 argininosuccinate lyase; Provisional; Region: PRK00855 1249661008248 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1249661008249 active sites [active] 1249661008250 tetramer interface [polypeptide binding]; other site 1249661008251 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1249661008252 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 1249661008253 motif II; other site 1249661008254 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1249661008255 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1249661008256 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1249661008257 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1249661008258 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 1249661008259 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661008260 catalytic residue [active] 1249661008261 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1249661008262 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1249661008263 trimer interface [polypeptide binding]; other site 1249661008264 active site 1249661008265 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1249661008266 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 1249661008267 E-class dimer interface [polypeptide binding]; other site 1249661008268 P-class dimer interface [polypeptide binding]; other site 1249661008269 active site 1249661008270 Cu2+ binding site [ion binding]; other site 1249661008271 Zn2+ binding site [ion binding]; other site 1249661008272 Domain of unknown function DUF59; Region: DUF59; pfam01883 1249661008273 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 1249661008274 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1249661008275 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661008276 ligand binding site [chemical binding]; other site 1249661008277 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1249661008278 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1249661008279 active site 1249661008280 HIGH motif; other site 1249661008281 KMSKS motif; other site 1249661008282 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1249661008283 tRNA binding surface [nucleotide binding]; other site 1249661008284 anticodon binding site; other site 1249661008285 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 1249661008286 dimer interface [polypeptide binding]; other site 1249661008287 putative tRNA-binding site [nucleotide binding]; other site 1249661008288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1249661008289 Family of unknown function (DUF490); Region: DUF490; pfam04357 1249661008290 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1249661008291 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249661008292 Surface antigen; Region: Bac_surface_Ag; pfam01103 1249661008293 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1249661008294 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1249661008295 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1249661008296 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1249661008297 active site 1249661008298 ATP-binding site [chemical binding]; other site 1249661008299 pantoate-binding site; other site 1249661008300 HXXH motif; other site 1249661008301 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1249661008302 tetramerization interface [polypeptide binding]; other site 1249661008303 active site 1249661008304 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1249661008305 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 1249661008306 P-loop; other site 1249661008307 Magnesium ion binding site [ion binding]; other site 1249661008308 cobyric acid synthase; Provisional; Region: PRK00784 1249661008309 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1249661008310 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1249661008311 catalytic triad [active] 1249661008312 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1249661008313 homotrimer interface [polypeptide binding]; other site 1249661008314 Walker A motif; other site 1249661008315 GTP binding site [chemical binding]; other site 1249661008316 Walker B motif; other site 1249661008317 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1249661008318 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 1249661008319 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1249661008320 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661008321 catalytic residue [active] 1249661008322 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1249661008323 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 1249661008324 cobalamin binding residues [chemical binding]; other site 1249661008325 putative BtuC binding residues; other site 1249661008326 dimer interface [polypeptide binding]; other site 1249661008327 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 1249661008328 catalytic core [active] 1249661008329 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1249661008330 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1249661008331 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1249661008332 putative dimer interface [polypeptide binding]; other site 1249661008333 active site pocket [active] 1249661008334 putative cataytic base [active] 1249661008335 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1249661008336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661008337 Walker A/P-loop; other site 1249661008338 ATP binding site [chemical binding]; other site 1249661008339 Q-loop/lid; other site 1249661008340 ABC transporter signature motif; other site 1249661008341 Walker B; other site 1249661008342 D-loop; other site 1249661008343 H-loop/switch region; other site 1249661008344 FecCD transport family; Region: FecCD; pfam01032 1249661008345 ABC-ATPase subunit interface; other site 1249661008346 dimer interface [polypeptide binding]; other site 1249661008347 putative PBP binding regions; other site 1249661008348 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1249661008349 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 1249661008350 N-terminal plug; other site 1249661008351 ligand-binding site [chemical binding]; other site 1249661008352 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 1249661008353 Cell division protein ZapA; Region: ZapA; cl01146 1249661008354 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1249661008355 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1249661008356 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1249661008357 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1249661008358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661008359 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 1249661008360 putative dimerization interface [polypeptide binding]; other site 1249661008361 putative substrate binding pocket [chemical binding]; other site 1249661008362 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1249661008363 Cytochrome c; Region: Cytochrom_C; cl11414 1249661008364 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 1249661008365 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1249661008366 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1249661008367 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 1249661008368 interface (dimer of trimers) [polypeptide binding]; other site 1249661008369 Substrate-binding/catalytic site; other site 1249661008370 Zn-binding sites [ion binding]; other site 1249661008371 Predicted permeases [General function prediction only]; Region: COG0795 1249661008372 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1249661008373 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1249661008374 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1249661008375 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 1249661008376 putative active site [active] 1249661008377 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1249661008378 active site 1249661008379 SAM binding site [chemical binding]; other site 1249661008380 homodimer interface [polypeptide binding]; other site 1249661008381 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1249661008382 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1249661008383 CysD dimerization site [polypeptide binding]; other site 1249661008384 G1 box; other site 1249661008385 putative GEF interaction site [polypeptide binding]; other site 1249661008386 GTP/Mg2+ binding site [chemical binding]; other site 1249661008387 Switch I region; other site 1249661008388 G2 box; other site 1249661008389 G3 box; other site 1249661008390 Switch II region; other site 1249661008391 G4 box; other site 1249661008392 G5 box; other site 1249661008393 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 1249661008394 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 1249661008395 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1249661008396 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 1249661008397 Active Sites [active] 1249661008398 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1249661008399 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 1249661008400 Active Sites [active] 1249661008401 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1249661008402 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1249661008403 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1249661008404 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1249661008405 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 1249661008406 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661008407 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1249661008408 substrate binding site [chemical binding]; other site 1249661008409 dimerization interface [polypeptide binding]; other site 1249661008410 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1249661008411 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 1249661008412 putative ligand binding site [chemical binding]; other site 1249661008413 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1249661008414 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 1249661008415 non-specific DNA binding site [nucleotide binding]; other site 1249661008416 salt bridge; other site 1249661008417 sequence-specific DNA binding site [nucleotide binding]; other site 1249661008418 Cupin domain; Region: Cupin_2; pfam07883 1249661008419 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1249661008420 intersubunit interface [polypeptide binding]; other site 1249661008421 active site 1249661008422 Zn2+ binding site [ion binding]; other site 1249661008423 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1249661008424 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1249661008425 inhibitor site; inhibition site 1249661008426 active site 1249661008427 dimer interface [polypeptide binding]; other site 1249661008428 catalytic residue [active] 1249661008429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1249661008430 MOSC domain; Region: MOSC; pfam03473 1249661008431 3-alpha domain; Region: 3-alpha; pfam03475 1249661008432 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661008433 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661008434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661008435 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 1249661008436 dimerization interface [polypeptide binding]; other site 1249661008437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661008438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661008439 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 1249661008440 dimerization interface [polypeptide binding]; other site 1249661008441 CopC domain; Region: CopC; pfam04234 1249661008442 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1249661008443 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1249661008444 active site 1249661008445 uracil binding [chemical binding]; other site 1249661008446 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661008447 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1249661008448 putative NAD(P) binding site [chemical binding]; other site 1249661008449 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1249661008450 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 1249661008451 catalytic loop [active] 1249661008452 iron binding site [ion binding]; other site 1249661008453 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 1249661008454 FAD binding pocket [chemical binding]; other site 1249661008455 FAD binding motif [chemical binding]; other site 1249661008456 phosphate binding motif [ion binding]; other site 1249661008457 beta-alpha-beta structure motif; other site 1249661008458 NAD binding pocket [chemical binding]; other site 1249661008459 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1249661008460 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 1249661008461 inhibitor-cofactor binding pocket; inhibition site 1249661008462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661008463 catalytic residue [active] 1249661008464 putative acetyltransferase; Provisional; Region: PRK03624 1249661008465 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1249661008466 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 1249661008467 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1249661008468 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1249661008469 Walker A/P-loop; other site 1249661008470 ATP binding site [chemical binding]; other site 1249661008471 Q-loop/lid; other site 1249661008472 ABC transporter signature motif; other site 1249661008473 Walker B; other site 1249661008474 D-loop; other site 1249661008475 H-loop/switch region; other site 1249661008476 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1249661008477 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1249661008478 Walker A/P-loop; other site 1249661008479 ATP binding site [chemical binding]; other site 1249661008480 Q-loop/lid; other site 1249661008481 ABC transporter signature motif; other site 1249661008482 Walker B; other site 1249661008483 D-loop; other site 1249661008484 H-loop/switch region; other site 1249661008485 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1249661008486 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 1249661008487 TM-ABC transporter signature motif; other site 1249661008488 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661008489 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 1249661008490 TM-ABC transporter signature motif; other site 1249661008491 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1249661008492 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1249661008493 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249661008494 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1249661008495 hypothetical protein; Reviewed; Region: PRK00024 1249661008496 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1249661008497 MPN+ (JAMM) motif; other site 1249661008498 Zinc-binding site [ion binding]; other site 1249661008499 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1249661008500 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1249661008501 L-aspartate oxidase; Provisional; Region: PRK09077 1249661008502 L-aspartate oxidase; Provisional; Region: PRK06175 1249661008503 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1249661008504 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 1249661008505 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 1249661008506 dimerization interface [polypeptide binding]; other site 1249661008507 active site 1249661008508 quinolinate synthetase; Provisional; Region: PRK09375 1249661008509 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 1249661008510 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1249661008511 Di-iron ligands [ion binding]; other site 1249661008512 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1249661008513 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1249661008514 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1249661008515 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 1249661008516 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 1249661008517 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1249661008518 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1249661008519 active site 1249661008520 substrate binding site [chemical binding]; other site 1249661008521 cosubstrate binding site; other site 1249661008522 catalytic site [active] 1249661008523 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1249661008524 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1249661008525 active site 1249661008526 Riboflavin kinase; Region: Flavokinase; smart00904 1249661008527 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1249661008528 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249661008529 active site 1249661008530 HIGH motif; other site 1249661008531 nucleotide binding site [chemical binding]; other site 1249661008532 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1249661008533 active site 1249661008534 KMSKS motif; other site 1249661008535 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1249661008536 tRNA binding surface [nucleotide binding]; other site 1249661008537 anticodon binding site; other site 1249661008538 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1249661008539 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1249661008540 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1249661008541 Flavoprotein; Region: Flavoprotein; pfam02441 1249661008542 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1249661008543 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1249661008544 trimer interface [polypeptide binding]; other site 1249661008545 active site 1249661008546 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1249661008547 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1249661008548 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1249661008549 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1249661008550 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1249661008551 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1249661008552 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1249661008553 Clp amino terminal domain; Region: Clp_N; pfam02861 1249661008554 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 1249661008555 Walker A motif; other site 1249661008556 ATP binding site [chemical binding]; other site 1249661008557 Walker B motif; other site 1249661008558 arginine finger; other site 1249661008559 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 1249661008560 Walker A motif; other site 1249661008561 ATP binding site [chemical binding]; other site 1249661008562 Walker B motif; other site 1249661008563 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1249661008564 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1249661008565 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 1249661008566 DNA-binding site [nucleotide binding]; DNA binding site 1249661008567 RNA-binding motif; other site 1249661008568 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1249661008569 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1249661008570 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1249661008571 isocitrate dehydrogenase; Validated; Region: PRK07362 1249661008572 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1249661008573 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1249661008574 pseudouridine synthase; Region: TIGR00093 1249661008575 active site 1249661008576 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1249661008577 elongation factor G; Reviewed; Region: PRK00007 1249661008578 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1249661008579 G1 box; other site 1249661008580 putative GEF interaction site [polypeptide binding]; other site 1249661008581 GTP/Mg2+ binding site [chemical binding]; other site 1249661008582 Switch I region; other site 1249661008583 G2 box; other site 1249661008584 G3 box; other site 1249661008585 Switch II region; other site 1249661008586 G4 box; other site 1249661008587 G5 box; other site 1249661008588 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 1249661008589 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 1249661008590 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 1249661008591 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 1249661008592 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1249661008593 active site 1249661008594 catalytic tetrad [active] 1249661008595 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1249661008596 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661008597 DNA-binding site [nucleotide binding]; DNA binding site 1249661008598 UTRA domain; Region: UTRA; pfam07702 1249661008599 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661008600 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661008601 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661008602 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661008603 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661008604 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661008605 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1249661008606 DNA binding residues [nucleotide binding] 1249661008607 MerR family regulatory protein; Region: MerR; pfam00376 1249661008608 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 1249661008609 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 1249661008610 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1249661008611 dimer interface [polypeptide binding]; other site 1249661008612 active site 1249661008613 oxalacetate/citrate binding site [chemical binding]; other site 1249661008614 citrylCoA binding site [chemical binding]; other site 1249661008615 coenzyme A binding site [chemical binding]; other site 1249661008616 catalytic triad [active] 1249661008617 putative transporter; Provisional; Region: PRK10504 1249661008618 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661008619 putative substrate translocation pore; other site 1249661008620 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661008621 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 1249661008622 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 1249661008623 S-adenosylmethionine binding site [chemical binding]; other site 1249661008624 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 1249661008625 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1249661008626 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1249661008627 Protein of unknown function (DUF962); Region: DUF962; cl01879 1249661008628 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 1249661008629 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1249661008630 ligand binding site [chemical binding]; other site 1249661008631 flexible hinge region; other site 1249661008632 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 1249661008633 putative switch regulator; other site 1249661008634 non-specific DNA interactions [nucleotide binding]; other site 1249661008635 DNA binding site [nucleotide binding] 1249661008636 sequence specific DNA binding site [nucleotide binding]; other site 1249661008637 putative cAMP binding site [chemical binding]; other site 1249661008638 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1249661008639 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1249661008640 Chromate transporter; Region: Chromate_transp; pfam02417 1249661008641 superoxide dismutase; Provisional; Region: PRK10543 1249661008642 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1249661008643 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1249661008644 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1249661008645 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 1249661008646 generic binding surface II; other site 1249661008647 generic binding surface I; other site 1249661008648 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 1249661008649 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1249661008650 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1249661008651 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1249661008652 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1249661008653 Ligand binding site; other site 1249661008654 oligomer interface; other site 1249661008655 adenylate kinase; Reviewed; Region: adk; PRK00279 1249661008656 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 1249661008657 AMP-binding site [chemical binding]; other site 1249661008658 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1249661008659 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1249661008660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661008661 NAD(P) binding site [chemical binding]; other site 1249661008662 active site 1249661008663 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1249661008664 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1249661008665 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1249661008666 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1249661008667 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1249661008668 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 1249661008669 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1249661008670 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1249661008671 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1249661008672 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1249661008673 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661008674 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1249661008675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1249661008676 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1249661008677 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1249661008678 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 1249661008679 putative deacylase active site [active] 1249661008680 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1249661008681 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661008682 acyl-activating enzyme (AAE) consensus motif; other site 1249661008683 AMP binding site [chemical binding]; other site 1249661008684 active site 1249661008685 CoA binding site [chemical binding]; other site 1249661008686 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1249661008687 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 1249661008688 active site 1249661008689 Int/Topo IB signature motif; other site 1249661008690 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1249661008691 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 1249661008692 DNA binding site [nucleotide binding] 1249661008693 active site 1249661008694 epoxyqueuosine reductase; Region: TIGR00276 1249661008695 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1249661008696 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1249661008697 AMIN domain; Region: AMIN; pfam11741 1249661008698 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 1249661008699 active site 1249661008700 metal binding site [ion binding]; metal-binding site 1249661008701 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1249661008702 EamA-like transporter family; Region: EamA; pfam00892 1249661008703 Pirin-related protein [General function prediction only]; Region: COG1741 1249661008704 Pirin; Region: Pirin; pfam02678 1249661008705 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1249661008706 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1249661008707 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 1249661008708 catalytic residues [active] 1249661008709 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1249661008710 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 1249661008711 putative ATP binding site [chemical binding]; other site 1249661008712 putative substrate interface [chemical binding]; other site 1249661008713 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1249661008714 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1249661008715 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1249661008716 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1249661008717 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 1249661008718 S-adenosylmethionine binding site [chemical binding]; other site 1249661008719 Protein of unknown function DUF72; Region: DUF72; pfam01904 1249661008720 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1249661008721 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1249661008722 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661008723 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 1249661008724 putative DNA binding site [nucleotide binding]; other site 1249661008725 putative Zn2+ binding site [ion binding]; other site 1249661008726 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661008727 Putative cyclase; Region: Cyclase; cl00814 1249661008728 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1249661008729 kynureninase; Region: kynureninase; TIGR01814 1249661008730 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661008731 catalytic residue [active] 1249661008732 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 1249661008733 benzoate transport; Region: 2A0115; TIGR00895 1249661008734 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661008735 putative substrate translocation pore; other site 1249661008736 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1249661008737 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1249661008738 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1249661008739 NAD(P) binding site [chemical binding]; other site 1249661008740 catalytic residues [active] 1249661008741 benzoylformate decarboxylase; Reviewed; Region: PRK07092 1249661008742 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249661008743 PYR/PP interface [polypeptide binding]; other site 1249661008744 dimer interface [polypeptide binding]; other site 1249661008745 TPP binding site [chemical binding]; other site 1249661008746 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249661008747 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 1249661008748 TPP-binding site [chemical binding]; other site 1249661008749 dimer interface [polypeptide binding]; other site 1249661008750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661008751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661008752 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 1249661008753 dimerization interface [polypeptide binding]; other site 1249661008754 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1249661008755 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1249661008756 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1249661008757 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1249661008758 N- and C-terminal domain interface [polypeptide binding]; other site 1249661008759 D-xylulose kinase; Region: XylB; TIGR01312 1249661008760 active site 1249661008761 MgATP binding site [chemical binding]; other site 1249661008762 catalytic site [active] 1249661008763 metal binding site [ion binding]; metal-binding site 1249661008764 xylulose binding site [chemical binding]; other site 1249661008765 homodimer interface [polypeptide binding]; other site 1249661008766 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1249661008767 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1249661008768 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1249661008769 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1249661008770 Beta-lactamase; Region: Beta-lactamase; pfam00144 1249661008771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661008772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661008773 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 1249661008774 putative dimerization interface [polypeptide binding]; other site 1249661008775 putative effector binding pocket; other site 1249661008776 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1249661008777 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1249661008778 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1249661008779 Walker A/P-loop; other site 1249661008780 ATP binding site [chemical binding]; other site 1249661008781 Q-loop/lid; other site 1249661008782 ABC transporter signature motif; other site 1249661008783 Walker B; other site 1249661008784 D-loop; other site 1249661008785 H-loop/switch region; other site 1249661008786 TOBE domain; Region: TOBE; pfam03459 1249661008787 TOBE domain; Region: TOBE_2; pfam08402 1249661008788 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 1249661008789 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1249661008790 active site 1249661008791 motif I; other site 1249661008792 motif II; other site 1249661008793 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1249661008794 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1249661008795 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 1249661008796 dimer interface [polypeptide binding]; other site 1249661008797 conserved gate region; other site 1249661008798 putative PBP binding loops; other site 1249661008799 ABC-ATPase subunit interface; other site 1249661008800 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1249661008801 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 1249661008802 dimer interface [polypeptide binding]; other site 1249661008803 conserved gate region; other site 1249661008804 putative PBP binding loops; other site 1249661008805 ABC-ATPase subunit interface; other site 1249661008806 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1249661008807 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1249661008808 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 1249661008809 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661008810 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 1249661008811 substrate binding site [chemical binding]; other site 1249661008812 ATP binding site [chemical binding]; other site 1249661008813 sorbitol dehydrogenase; Provisional; Region: PRK07067 1249661008814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661008815 NAD(P) binding site [chemical binding]; other site 1249661008816 active site 1249661008817 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1249661008818 metal binding site 2 [ion binding]; metal-binding site 1249661008819 putative DNA binding helix; other site 1249661008820 metal binding site 1 [ion binding]; metal-binding site 1249661008821 dimer interface [polypeptide binding]; other site 1249661008822 structural Zn2+ binding site [ion binding]; other site 1249661008823 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 1249661008824 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1249661008825 metal binding site [ion binding]; metal-binding site 1249661008826 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1249661008827 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661008828 Walker A/P-loop; other site 1249661008829 ATP binding site [chemical binding]; other site 1249661008830 Q-loop/lid; other site 1249661008831 ABC transporter signature motif; other site 1249661008832 Walker B; other site 1249661008833 D-loop; other site 1249661008834 H-loop/switch region; other site 1249661008835 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1249661008836 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 1249661008837 dimer interface [polypeptide binding]; other site 1249661008838 putative PBP binding regions; other site 1249661008839 ABC-ATPase subunit interface; other site 1249661008840 S-formylglutathione hydrolase; Region: PLN02442 1249661008841 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1249661008842 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1249661008843 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1249661008844 substrate binding site [chemical binding]; other site 1249661008845 catalytic Zn binding site [ion binding]; other site 1249661008846 NAD binding site [chemical binding]; other site 1249661008847 structural Zn binding site [ion binding]; other site 1249661008848 dimer interface [polypeptide binding]; other site 1249661008849 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1249661008850 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1249661008851 conserved cys residue [active] 1249661008852 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249661008853 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661008854 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1249661008855 nucleotide binding site [chemical binding]; other site 1249661008856 xanthine permease; Region: pbuX; TIGR03173 1249661008857 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1249661008858 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1249661008859 Protein export membrane protein; Region: SecD_SecF; cl14618 1249661008860 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1249661008861 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1249661008862 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661008863 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661008864 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1249661008865 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661008866 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1249661008867 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1249661008868 hydrophobic ligand binding site; other site 1249661008869 Domain of unknown function (DUF427); Region: DUF427; pfam04248 1249661008870 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1249661008871 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1249661008872 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1249661008873 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 1249661008874 protein binding site [polypeptide binding]; other site 1249661008875 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 1249661008876 protein binding site [polypeptide binding]; other site 1249661008877 sensor protein QseC; Provisional; Region: PRK10337 1249661008878 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 1249661008879 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 1249661008880 ATP binding site [chemical binding]; other site 1249661008881 Mg2+ binding site [ion binding]; other site 1249661008882 G-X-G motif; other site 1249661008883 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1249661008884 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 1249661008885 active site 1249661008886 phosphorylation site [posttranslational modification] 1249661008887 intermolecular recognition site; other site 1249661008888 dimerization interface [polypeptide binding]; other site 1249661008889 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 1249661008890 DNA binding site [nucleotide binding] 1249661008891 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1249661008892 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1249661008893 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1249661008894 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 1249661008895 active site 1249661008896 catalytic triad [active] 1249661008897 oxyanion hole [active] 1249661008898 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1249661008899 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1249661008900 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1249661008901 ATP-grasp domain; Region: ATP-grasp; pfam02222 1249661008902 AIR carboxylase; Region: AIRC; pfam00731 1249661008903 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1249661008904 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1249661008905 ATP binding site [chemical binding]; other site 1249661008906 active site 1249661008907 substrate binding site [chemical binding]; other site 1249661008908 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1249661008909 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 1249661008910 intersubunit interface [polypeptide binding]; other site 1249661008911 active site 1249661008912 zinc binding site [ion binding]; other site 1249661008913 Na+ binding site [ion binding]; other site 1249661008914 pyruvate kinase; Provisional; Region: PRK05826 1249661008915 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 1249661008916 domain interfaces; other site 1249661008917 active site 1249661008918 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1249661008919 Phosphoglycerate kinase; Region: PGK; pfam00162 1249661008920 substrate binding site [chemical binding]; other site 1249661008921 hinge regions; other site 1249661008922 ADP binding site [chemical binding]; other site 1249661008923 catalytic site [active] 1249661008924 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1249661008925 AzlC protein; Region: AzlC; pfam03591 1249661008926 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1249661008927 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 1249661008928 homodimer interface [polypeptide binding]; other site 1249661008929 substrate-cofactor binding pocket; other site 1249661008930 catalytic residue [active] 1249661008931 Zinc-finger domain; Region: zf-CHCC; cl01821 1249661008932 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249661008933 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 1249661008934 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 1249661008935 putative active site [active] 1249661008936 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1249661008937 SnoaL-like domain; Region: SnoaL_3; pfam13474 1249661008938 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1249661008939 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 1249661008940 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1249661008941 Peptidase family M48; Region: Peptidase_M48; pfam01435 1249661008942 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 1249661008943 trimer interface [polypeptide binding]; other site 1249661008944 dimer interface [polypeptide binding]; other site 1249661008945 putative active site [active] 1249661008946 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1249661008947 hypothetical protein; Provisional; Region: PRK11667 1249661008948 O-Antigen ligase; Region: Wzy_C; pfam04932 1249661008949 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 1249661008950 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1249661008951 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1249661008952 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1249661008953 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1249661008954 CoA binding domain; Region: CoA_binding; smart00881 1249661008955 CoA-ligase; Region: Ligase_CoA; pfam00549 1249661008956 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1249661008957 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1249661008958 CoA-ligase; Region: Ligase_CoA; pfam00549 1249661008959 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1249661008960 recombination regulator RecX; Provisional; Region: recX; PRK14136 1249661008961 recombinase A; Provisional; Region: recA; PRK09354 1249661008962 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 1249661008963 hexamer interface [polypeptide binding]; other site 1249661008964 Walker A motif; other site 1249661008965 ATP binding site [chemical binding]; other site 1249661008966 Walker B motif; other site 1249661008967 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661008968 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 1249661008969 active site 1249661008970 phosphorylation site [posttranslational modification] 1249661008971 intermolecular recognition site; other site 1249661008972 dimerization interface [polypeptide binding]; other site 1249661008973 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 1249661008974 DNA binding site [nucleotide binding] 1249661008975 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1249661008976 HAMP domain; Region: HAMP; pfam00672 1249661008977 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 1249661008978 dimer interface [polypeptide binding]; other site 1249661008979 phosphorylation site [posttranslational modification] 1249661008980 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 1249661008981 ATP binding site [chemical binding]; other site 1249661008982 Mg2+ binding site [ion binding]; other site 1249661008983 G-X-G motif; other site 1249661008984 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661008985 putative substrate translocation pore; other site 1249661008986 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 1249661008987 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 1249661008988 hinge; other site 1249661008989 active site 1249661008990 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661008991 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 1249661008992 DNA binding residues [nucleotide binding] 1249661008993 dimerization interface [polypeptide binding]; other site 1249661008994 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 1249661008995 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1249661008996 metal binding site [ion binding]; metal-binding site 1249661008997 substrate binding pocket [chemical binding]; other site 1249661008998 EamA-like transporter family; Region: EamA; cl17759 1249661008999 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 1249661009000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661009001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661009002 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 1249661009003 dimerization interface [polypeptide binding]; other site 1249661009004 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1249661009005 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1249661009006 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 1249661009007 NAD(P) binding pocket [chemical binding]; other site 1249661009008 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1249661009009 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 1249661009010 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1249661009011 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1249661009012 BetR domain; Region: BetR; pfam08667 1249661009013 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661009014 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 1249661009015 active site 1249661009016 phosphorylation site [posttranslational modification] 1249661009017 intermolecular recognition site; other site 1249661009018 dimerization interface [polypeptide binding]; other site 1249661009019 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 1249661009020 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1249661009021 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 1249661009022 dimer interface [polypeptide binding]; other site 1249661009023 phosphorylation site [posttranslational modification] 1249661009024 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 1249661009025 ATP binding site [chemical binding]; other site 1249661009026 Mg2+ binding site [ion binding]; other site 1249661009027 G-X-G motif; other site 1249661009028 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 1249661009029 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661009030 active site 1249661009031 phosphorylation site [posttranslational modification] 1249661009032 intermolecular recognition site; other site 1249661009033 dimerization interface [polypeptide binding]; other site 1249661009034 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661009035 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661009036 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 1249661009037 putative effector binding pocket; other site 1249661009038 putative dimerization interface [polypeptide binding]; other site 1249661009039 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1249661009040 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1249661009041 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1249661009042 active site 1249661009043 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1249661009044 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1249661009045 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1249661009046 Transglycosylase; Region: Transgly; cl17702 1249661009047 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249661009048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661009049 active site 1249661009050 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1249661009051 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 1249661009052 active site 1249661009053 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1249661009054 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1249661009055 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 1249661009056 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 1249661009057 dimer interface [polypeptide binding]; other site 1249661009058 conserved gate region; other site 1249661009059 putative PBP binding loops; other site 1249661009060 ABC-ATPase subunit interface; other site 1249661009061 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 1249661009062 dimer interface [polypeptide binding]; other site 1249661009063 ABC-ATPase subunit interface; other site 1249661009064 putative PBP binding loops; other site 1249661009065 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1249661009066 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1249661009067 Walker A/P-loop; other site 1249661009068 ATP binding site [chemical binding]; other site 1249661009069 Q-loop/lid; other site 1249661009070 ABC transporter signature motif; other site 1249661009071 Walker B; other site 1249661009072 D-loop; other site 1249661009073 H-loop/switch region; other site 1249661009074 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 1249661009075 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1249661009076 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 1249661009077 active site residue [active] 1249661009078 Predicted ATPase [General function prediction only]; Region: COG3911 1249661009079 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1249661009080 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661009081 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 1249661009082 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 1249661009083 PAS domain; Region: PAS_9; pfam13426 1249661009084 putative active site [active] 1249661009085 heme pocket [chemical binding]; other site 1249661009086 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 1249661009087 dimerization interface [polypeptide binding]; other site 1249661009088 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1249661009089 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661009090 dimer interface [polypeptide binding]; other site 1249661009091 putative CheW interface [polypeptide binding]; other site 1249661009092 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1249661009093 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1249661009094 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 1249661009095 active site 1249661009096 phosphorylation site [posttranslational modification] 1249661009097 intermolecular recognition site; other site 1249661009098 dimerization interface [polypeptide binding]; other site 1249661009099 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249661009100 Zn2+ binding site [ion binding]; other site 1249661009101 Mg2+ binding site [ion binding]; other site 1249661009102 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1249661009103 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1249661009104 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1249661009105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661009106 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 1249661009107 linker region; other site 1249661009108 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 1249661009109 ATP binding site [chemical binding]; other site 1249661009110 Mg2+ binding site [ion binding]; other site 1249661009111 G-X-G motif; other site 1249661009112 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1249661009113 active site 1249661009114 metal binding site [ion binding]; metal-binding site 1249661009115 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1249661009116 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1249661009117 galactonate dehydratase; Provisional; Region: PRK14017 1249661009118 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 1249661009119 putative active site pocket [active] 1249661009120 putative metal binding site [ion binding]; other site 1249661009121 Copper resistance protein D; Region: CopD; pfam05425 1249661009122 Cytochrome c; Region: Cytochrom_C; cl11414 1249661009123 Cytochrome c; Region: Cytochrom_C; cl11414 1249661009124 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661009125 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661009126 Cytochrome c; Region: Cytochrom_C; pfam00034 1249661009127 helicase 45; Provisional; Region: PTZ00424 1249661009128 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 1249661009129 ATP binding site [chemical binding]; other site 1249661009130 Mg++ binding site [ion binding]; other site 1249661009131 motif III; other site 1249661009132 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 1249661009133 nucleotide binding region [chemical binding]; other site 1249661009134 ATP-binding site [chemical binding]; other site 1249661009135 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1249661009136 dinuclear metal binding motif [ion binding]; other site 1249661009137 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1249661009138 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1249661009139 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1249661009140 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1249661009141 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249661009142 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1249661009143 glycerol kinase; Provisional; Region: glpK; PRK00047 1249661009144 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1249661009145 N- and C-terminal domain interface [polypeptide binding]; other site 1249661009146 active site 1249661009147 MgATP binding site [chemical binding]; other site 1249661009148 catalytic site [active] 1249661009149 metal binding site [ion binding]; metal-binding site 1249661009150 glycerol binding site [chemical binding]; other site 1249661009151 homotetramer interface [polypeptide binding]; other site 1249661009152 homodimer interface [polypeptide binding]; other site 1249661009153 FBP binding site [chemical binding]; other site 1249661009154 protein IIAGlc interface [polypeptide binding]; other site 1249661009155 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1249661009156 amphipathic channel; other site 1249661009157 Asn-Pro-Ala signature motifs; other site 1249661009158 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_6; cd06154 1249661009159 homotrimer interaction site [polypeptide binding]; other site 1249661009160 putative active site [active] 1249661009161 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 1249661009162 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 1249661009163 putative active site [active] 1249661009164 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1249661009165 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 1249661009166 hinge; other site 1249661009167 active site 1249661009168 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 1249661009169 active site 1249661009170 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1249661009171 dimer interface [polypeptide binding]; other site 1249661009172 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 1249661009173 Ligand Binding Site [chemical binding]; other site 1249661009174 Molecular Tunnel; other site 1249661009175 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1249661009176 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1249661009177 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1249661009178 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 1249661009179 motif II; other site 1249661009180 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1249661009181 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1249661009182 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1249661009183 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 1249661009184 non-specific DNA binding site [nucleotide binding]; other site 1249661009185 salt bridge; other site 1249661009186 sequence-specific DNA binding site [nucleotide binding]; other site 1249661009187 Cupin domain; Region: Cupin_2; pfam07883 1249661009188 MFS transport protein AraJ; Provisional; Region: PRK10091 1249661009189 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661009190 putative substrate translocation pore; other site 1249661009191 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661009192 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661009193 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 1249661009194 putative effector binding pocket; other site 1249661009195 dimerization interface [polypeptide binding]; other site 1249661009196 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1249661009197 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1249661009198 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 1249661009199 FeS/SAM binding site; other site 1249661009200 TRAM domain; Region: TRAM; pfam01938 1249661009201 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1249661009202 PhoH-like protein; Region: PhoH; pfam02562 1249661009203 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 1249661009204 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1249661009205 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 1249661009206 putative active site pocket [active] 1249661009207 dimerization interface [polypeptide binding]; other site 1249661009208 putative catalytic residue [active] 1249661009209 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1249661009210 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 1249661009211 Transporter associated domain; Region: CorC_HlyC; smart01091 1249661009212 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1249661009213 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1249661009214 putative active site [active] 1249661009215 catalytic triad [active] 1249661009216 putative dimer interface [polypeptide binding]; other site 1249661009217 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 1249661009218 dimer interface [polypeptide binding]; other site 1249661009219 motif 1; other site 1249661009220 active site 1249661009221 motif 2; other site 1249661009222 motif 3; other site 1249661009223 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1249661009224 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1249661009225 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 1249661009226 active site 1249661009227 motif I; other site 1249661009228 motif II; other site 1249661009229 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1249661009230 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1249661009231 putative acyl-acceptor binding pocket; other site 1249661009232 Protein of unknown function DUF45; Region: DUF45; pfam01863 1249661009233 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661009234 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1249661009235 dimer interface [polypeptide binding]; other site 1249661009236 active site 1249661009237 metal binding site [ion binding]; metal-binding site 1249661009238 glutathione binding site [chemical binding]; other site 1249661009239 EamA-like transporter family; Region: EamA; pfam00892 1249661009240 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1249661009241 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1249661009242 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 1249661009243 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1249661009244 SurA N-terminal domain; Region: SurA_N; pfam09312 1249661009245 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1249661009246 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249661009247 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249661009248 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1249661009249 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1249661009250 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1249661009251 Phosphotransferase enzyme family; Region: APH; pfam01636 1249661009252 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 1249661009253 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1249661009254 Substrate binding site; other site 1249661009255 metal-binding site 1249661009256 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1249661009257 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249661009258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661009259 Walker A/P-loop; other site 1249661009260 ATP binding site [chemical binding]; other site 1249661009261 Q-loop/lid; other site 1249661009262 ABC transporter signature motif; other site 1249661009263 Walker B; other site 1249661009264 D-loop; other site 1249661009265 H-loop/switch region; other site 1249661009266 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 1249661009267 conserved hypothetical protein; Region: nitr_red_assoc; TIGR02664 1249661009268 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1249661009269 enoyl-CoA hydratase; Provisional; Region: PRK06688 1249661009270 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 1249661009271 substrate binding site [chemical binding]; other site 1249661009272 oxyanion hole (OAH) forming residues; other site 1249661009273 trimer interface [polypeptide binding]; other site 1249661009274 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 1249661009275 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1249661009276 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 1249661009277 dimer interface [polypeptide binding]; other site 1249661009278 active site 1249661009279 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1249661009280 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1249661009281 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1249661009282 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1249661009283 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 1249661009284 substrate binding site [chemical binding]; other site 1249661009285 oxyanion hole (OAH) forming residues; other site 1249661009286 trimer interface [polypeptide binding]; other site 1249661009287 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1249661009288 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1249661009289 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1249661009290 FAD binding site [chemical binding]; other site 1249661009291 substrate binding site [chemical binding]; other site 1249661009292 catalytic residues [active] 1249661009293 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1249661009294 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661009295 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661009296 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1249661009297 PLD-like domain; Region: PLDc_2; pfam13091 1249661009298 putative active site [active] 1249661009299 catalytic site [active] 1249661009300 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1249661009301 PLD-like domain; Region: PLDc_2; pfam13091 1249661009302 putative active site [active] 1249661009303 catalytic site [active] 1249661009304 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 1249661009305 nudix motif; other site 1249661009306 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1249661009307 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 1249661009308 dimer interface [polypeptide binding]; other site 1249661009309 anticodon binding site; other site 1249661009310 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 1249661009311 homodimer interface [polypeptide binding]; other site 1249661009312 motif 1; other site 1249661009313 active site 1249661009314 motif 2; other site 1249661009315 GAD domain; Region: GAD; pfam02938 1249661009316 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 1249661009317 motif 3; other site 1249661009318 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1249661009319 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1249661009320 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 1249661009321 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 1249661009322 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1249661009323 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1249661009324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1249661009325 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1249661009326 Tim44-like domain; Region: Tim44; pfam04280 1249661009327 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1249661009328 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 1249661009329 S-adenosylmethionine binding site [chemical binding]; other site 1249661009330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1249661009331 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1249661009332 nucleotide binding site/active site [active] 1249661009333 HIT family signature motif; other site 1249661009334 catalytic residue [active] 1249661009335 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 1249661009336 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1249661009337 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661009338 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1249661009339 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1249661009340 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1249661009341 Cysteine-rich domain; Region: CCG; pfam02754 1249661009342 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 1249661009343 threonine dehydratase; Reviewed; Region: PRK09224 1249661009344 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 1249661009345 tetramer interface [polypeptide binding]; other site 1249661009346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661009347 catalytic residue [active] 1249661009348 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1249661009349 putative Ile/Val binding site [chemical binding]; other site 1249661009350 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1249661009351 putative Ile/Val binding site [chemical binding]; other site 1249661009352 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1249661009353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1249661009354 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1249661009355 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 1249661009356 homotrimer interaction site [polypeptide binding]; other site 1249661009357 putative active site [active] 1249661009358 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1249661009359 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 1249661009360 active site 1249661009361 putative substrate binding pocket [chemical binding]; other site 1249661009362 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 1249661009363 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249661009364 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249661009365 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 1249661009366 putative active site [active] 1249661009367 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1249661009368 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 1249661009369 dimer interface [polypeptide binding]; other site 1249661009370 active site 1249661009371 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249661009372 substrate binding site [chemical binding]; other site 1249661009373 catalytic residue [active] 1249661009374 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1249661009375 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1249661009376 conserved cys residue [active] 1249661009377 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1249661009378 MarR family; Region: MarR; pfam01047 1249661009379 MarR family; Region: MarR_2; cl17246 1249661009380 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661009381 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661009382 putative substrate translocation pore; other site 1249661009383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661009384 EcsC protein family; Region: EcsC; pfam12787 1249661009385 EcsC protein family; Region: EcsC; pfam12787 1249661009386 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1249661009387 CHRD domain; Region: CHRD; pfam07452 1249661009388 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 1249661009389 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661009390 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1249661009391 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1249661009392 SLBB domain; Region: SLBB; pfam10531 1249661009393 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1249661009394 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249661009395 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1249661009396 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1249661009397 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; cl00047 1249661009398 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 1249661009399 non-specific DNA interactions [nucleotide binding]; other site 1249661009400 DNA binding site [nucleotide binding] 1249661009401 sequence specific DNA binding site [nucleotide binding]; other site 1249661009402 putative cAMP binding site [chemical binding]; other site 1249661009403 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1249661009404 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 1249661009405 ligand binding site [chemical binding]; other site 1249661009406 flexible hinge region; other site 1249661009407 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1249661009408 acyl carrier protein; Provisional; Region: PRK07081 1249661009409 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661009410 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661009411 active site 1249661009412 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661009413 active site 1249661009414 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 1249661009415 dimer interface [polypeptide binding]; other site 1249661009416 motif 1; other site 1249661009417 active site 1249661009418 motif 2; other site 1249661009419 motif 3; other site 1249661009420 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 1249661009421 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1249661009422 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 1249661009423 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1249661009424 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 1249661009425 Walker A motif; other site 1249661009426 ATP binding site [chemical binding]; other site 1249661009427 Walker B motif; other site 1249661009428 arginine finger; other site 1249661009429 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 1249661009430 active site 1249661009431 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661009432 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 1249661009433 putative ADP-binding pocket [chemical binding]; other site 1249661009434 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249661009435 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1249661009436 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1249661009437 Substrate binding site; other site 1249661009438 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1249661009439 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 1249661009440 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661009441 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1249661009442 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1249661009443 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661009444 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661009445 metal binding site [ion binding]; metal-binding site 1249661009446 active site 1249661009447 I-site; other site 1249661009448 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 1249661009449 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 1249661009450 YcaO-like family; Region: YcaO; pfam02624 1249661009451 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 1249661009452 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 1249661009453 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 1249661009454 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1249661009455 active site 1249661009456 ATP binding site [chemical binding]; other site 1249661009457 substrate binding site [chemical binding]; other site 1249661009458 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 1249661009459 activation loop (A-loop); other site 1249661009460 cyclase homology domain; Region: CHD; cd07302 1249661009461 dimer interface [polypeptide binding]; other site 1249661009462 nucleotidyl binding site; other site 1249661009463 metal binding site [ion binding]; metal-binding site 1249661009464 AAA ATPase domain; Region: AAA_16; pfam13191 1249661009465 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1249661009466 phosphopeptide binding site; other site 1249661009467 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1249661009468 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1249661009469 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1249661009470 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 1249661009471 dimer interface [polypeptide binding]; other site 1249661009472 ssDNA binding site [nucleotide binding]; other site 1249661009473 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249661009474 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661009475 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661009476 putative substrate translocation pore; other site 1249661009477 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1249661009478 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1249661009479 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1249661009480 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1249661009481 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1249661009482 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1249661009483 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1249661009484 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1249661009485 putative active site [active] 1249661009486 putative substrate binding site [chemical binding]; other site 1249661009487 putative cosubstrate binding site; other site 1249661009488 catalytic site [active] 1249661009489 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 1249661009490 nudix motif; other site 1249661009491 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661009492 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661009493 active site 1249661009494 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1249661009495 putative cation:proton antiport protein; Provisional; Region: PRK10669 1249661009496 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1249661009497 TrkA-N domain; Region: TrkA_N; pfam02254 1249661009498 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1249661009499 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 1249661009500 putative active site [active] 1249661009501 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 1249661009502 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 1249661009503 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1249661009504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1249661009505 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1249661009506 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1249661009507 OstA-like protein; Region: OstA; pfam03968 1249661009508 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1249661009509 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1249661009510 Walker A/P-loop; other site 1249661009511 ATP binding site [chemical binding]; other site 1249661009512 Q-loop/lid; other site 1249661009513 ABC transporter signature motif; other site 1249661009514 Walker B; other site 1249661009515 D-loop; other site 1249661009516 H-loop/switch region; other site 1249661009517 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1249661009518 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1249661009519 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1249661009520 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 1249661009521 30S subunit binding site; other site 1249661009522 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 1249661009523 active site 1249661009524 phosphorylation site [posttranslational modification] 1249661009525 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1249661009526 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1249661009527 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 1249661009528 Hpr binding site; other site 1249661009529 active site 1249661009530 homohexamer subunit interaction site [polypeptide binding]; other site 1249661009531 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1249661009532 AAA domain; Region: AAA_18; pfam13238 1249661009533 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1249661009534 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1249661009535 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1249661009536 minor groove reading motif; other site 1249661009537 helix-hairpin-helix signature motif; other site 1249661009538 substrate binding pocket [chemical binding]; other site 1249661009539 active site 1249661009540 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 1249661009541 DNA binding and oxoG recognition site [nucleotide binding] 1249661009542 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1249661009543 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1249661009544 DNA binding site [nucleotide binding] 1249661009545 catalytic residue [active] 1249661009546 H2TH interface [polypeptide binding]; other site 1249661009547 putative catalytic residues [active] 1249661009548 turnover-facilitating residue; other site 1249661009549 intercalation triad [nucleotide binding]; other site 1249661009550 8OG recognition residue [nucleotide binding]; other site 1249661009551 putative reading head residues; other site 1249661009552 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1249661009553 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1249661009554 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 1249661009555 binding surface 1249661009556 TPR motif; other site 1249661009557 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 1249661009558 binding surface 1249661009559 TPR motif; other site 1249661009560 TPR repeat; Region: TPR_11; pfam13414 1249661009561 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 1249661009562 binding surface 1249661009563 TPR motif; other site 1249661009564 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1249661009565 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1249661009566 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1249661009567 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1249661009568 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1249661009569 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1249661009570 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661009571 active site 1249661009572 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1249661009573 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1249661009574 5S rRNA interface [nucleotide binding]; other site 1249661009575 CTC domain interface [polypeptide binding]; other site 1249661009576 L16 interface [polypeptide binding]; other site 1249661009577 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 1249661009578 putative active site [active] 1249661009579 catalytic residue [active] 1249661009580 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1249661009581 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 1249661009582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661009583 homodimer interface [polypeptide binding]; other site 1249661009584 catalytic residue [active] 1249661009585 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1249661009586 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1249661009587 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1249661009588 active site 1249661009589 (T/H)XGH motif; other site 1249661009590 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1249661009591 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 1249661009592 S-adenosylmethionine binding site [chemical binding]; other site 1249661009593 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1249661009594 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1249661009595 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 1249661009596 P loop; other site 1249661009597 GTP binding site [chemical binding]; other site 1249661009598 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661009599 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 1249661009600 C-terminal domain interface [polypeptide binding]; other site 1249661009601 GSH binding site (G-site) [chemical binding]; other site 1249661009602 putative dimer interface [polypeptide binding]; other site 1249661009603 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1249661009604 dimer interface [polypeptide binding]; other site 1249661009605 N-terminal domain interface [polypeptide binding]; other site 1249661009606 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1249661009607 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1249661009608 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661009609 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1249661009610 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1249661009611 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1249661009612 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 1249661009613 [2Fe-2S] cluster binding site [ion binding]; other site 1249661009614 Molybdopterin oxidoreductase Fe4S4 domain; Region: Molybdop_Fe4S4; smart00926 1249661009615 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1249661009616 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 1249661009617 molybdopterin cofactor binding site; other site 1249661009618 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 1249661009619 molybdopterin cofactor binding site; other site 1249661009620 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1249661009621 glycosyl transferase family protein; Provisional; Region: PRK08136 1249661009622 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1249661009623 2-isopropylmalate synthase; Validated; Region: PRK03739 1249661009624 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1249661009625 active site 1249661009626 catalytic residues [active] 1249661009627 metal binding site [ion binding]; metal-binding site 1249661009628 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1249661009629 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1249661009630 SnoaL-like domain; Region: SnoaL_3; pfam13474 1249661009631 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1249661009632 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1249661009633 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1249661009634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661009635 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 1249661009636 DNA binding residues [nucleotide binding] 1249661009637 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1249661009638 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1249661009639 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1249661009640 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1249661009641 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1249661009642 NADP binding site [chemical binding]; other site 1249661009643 active site 1249661009644 steroid binding site; other site 1249661009645 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661009646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661009647 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 1249661009648 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1249661009649 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 1249661009650 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1249661009651 active site 1249661009652 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1249661009653 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1249661009654 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 1249661009655 active site turn [active] 1249661009656 phosphorylation site [posttranslational modification] 1249661009657 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1249661009658 HPr interaction site; other site 1249661009659 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1249661009660 active site 1249661009661 phosphorylation site [posttranslational modification] 1249661009662 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 1249661009663 dimerization domain swap beta strand [polypeptide binding]; other site 1249661009664 regulatory protein interface [polypeptide binding]; other site 1249661009665 active site 1249661009666 regulatory phosphorylation site [posttranslational modification]; other site 1249661009667 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1249661009668 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1249661009669 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1249661009670 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1249661009671 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1249661009672 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 1249661009673 dimer interface [polypeptide binding]; other site 1249661009674 active site 1249661009675 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 1249661009676 dimer interface [polypeptide binding]; other site 1249661009677 active site 1249661009678 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1249661009679 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 1249661009680 active site 1249661009681 dimer interface [polypeptide binding]; other site 1249661009682 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1249661009683 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661009684 DNA-binding site [nucleotide binding]; DNA binding site 1249661009685 UTRA domain; Region: UTRA; pfam07702 1249661009686 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1249661009687 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1249661009688 putative active site [active] 1249661009689 putative PHP Thumb interface [polypeptide binding]; other site 1249661009690 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 1249661009691 generic binding surface II; other site 1249661009692 generic binding surface I; other site 1249661009693 DNA Polymerase Y-family; Region: PolY_like; cd03468 1249661009694 active site 1249661009695 DNA binding site [nucleotide binding] 1249661009696 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 1249661009697 dimerization interface [polypeptide binding]; other site 1249661009698 putative DNA binding site [nucleotide binding]; other site 1249661009699 putative Zn2+ binding site [ion binding]; other site 1249661009700 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_20; cd07254 1249661009701 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661009702 putative metal binding site [ion binding]; other site 1249661009703 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1249661009704 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1249661009705 active site 1249661009706 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1249661009707 arsenical-resistance protein; Region: acr3; TIGR00832 1249661009708 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1249661009709 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661009710 Walker A/P-loop; other site 1249661009711 ATP binding site [chemical binding]; other site 1249661009712 Q-loop/lid; other site 1249661009713 ABC transporter signature motif; other site 1249661009714 Walker B; other site 1249661009715 D-loop; other site 1249661009716 H-loop/switch region; other site 1249661009717 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661009718 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1249661009719 TM-ABC transporter signature motif; other site 1249661009720 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1249661009721 zinc binding site [ion binding]; other site 1249661009722 putative ligand binding site [chemical binding]; other site 1249661009723 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1249661009724 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1249661009725 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 1249661009726 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1249661009727 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661009728 dimer interface [polypeptide binding]; other site 1249661009729 putative CheW interface [polypeptide binding]; other site 1249661009730 YCII-related domain; Region: YCII; cl00999 1249661009731 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 1249661009732 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661009733 Cu(I) binding site [ion binding]; other site 1249661009734 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1249661009735 UbiA prenyltransferase family; Region: UbiA; pfam01040 1249661009736 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1249661009737 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1249661009738 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 1249661009739 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1249661009740 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 1249661009741 Subunit III/VIIa interface [polypeptide binding]; other site 1249661009742 Phospholipid binding site [chemical binding]; other site 1249661009743 Subunit I/III interface [polypeptide binding]; other site 1249661009744 Subunit III/VIb interface [polypeptide binding]; other site 1249661009745 Subunit III/VIa interface; other site 1249661009746 Subunit III/Vb interface [polypeptide binding]; other site 1249661009747 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1249661009748 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1249661009749 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1249661009750 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 1249661009751 Subunit I/III interface [polypeptide binding]; other site 1249661009752 D-pathway; other site 1249661009753 Subunit I/VIIc interface [polypeptide binding]; other site 1249661009754 Subunit I/IV interface [polypeptide binding]; other site 1249661009755 Subunit I/II interface [polypeptide binding]; other site 1249661009756 Low-spin heme (heme a) binding site [chemical binding]; other site 1249661009757 Subunit I/VIIa interface [polypeptide binding]; other site 1249661009758 Subunit I/VIa interface [polypeptide binding]; other site 1249661009759 Dimer interface; other site 1249661009760 Putative water exit pathway; other site 1249661009761 Binuclear center (heme a3/CuB) [ion binding]; other site 1249661009762 K-pathway; other site 1249661009763 Subunit I/Vb interface [polypeptide binding]; other site 1249661009764 Putative proton exit pathway; other site 1249661009765 Subunit I/VIb interface; other site 1249661009766 Subunit I/VIc interface [polypeptide binding]; other site 1249661009767 Electron transfer pathway; other site 1249661009768 Subunit I/VIIIb interface [polypeptide binding]; other site 1249661009769 Subunit I/VIIb interface [polypeptide binding]; other site 1249661009770 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1249661009771 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 1249661009772 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1249661009773 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661009774 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1249661009775 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1249661009776 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661009777 ligand binding site [chemical binding]; other site 1249661009778 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 1249661009779 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1249661009780 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 1249661009781 S-adenosylmethionine binding site [chemical binding]; other site 1249661009782 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1249661009783 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661009784 active site 1249661009785 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1249661009786 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 1249661009787 putative ADP-ribose binding site [chemical binding]; other site 1249661009788 putative active site [active] 1249661009789 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1249661009790 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1249661009791 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1249661009792 preprotein translocase subunit SecB; Validated; Region: PRK05751 1249661009793 SecA binding site; other site 1249661009794 Preprotein binding site; other site 1249661009795 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 1249661009796 GSH binding site [chemical binding]; other site 1249661009797 catalytic residues [active] 1249661009798 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 1249661009799 active site residue [active] 1249661009800 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 1249661009801 catalytic core [active] 1249661009802 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 1249661009803 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1249661009804 C-terminal peptidase (prc); Region: prc; TIGR00225 1249661009805 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 1249661009806 protein binding site [polypeptide binding]; other site 1249661009807 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1249661009808 Catalytic dyad [active] 1249661009809 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1249661009810 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 1249661009811 ATP binding site [chemical binding]; other site 1249661009812 substrate interface [chemical binding]; other site 1249661009813 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1249661009814 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1249661009815 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1249661009816 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1249661009817 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 1249661009818 dimerization domain swap beta strand [polypeptide binding]; other site 1249661009819 regulatory protein interface [polypeptide binding]; other site 1249661009820 active site 1249661009821 regulatory phosphorylation site [posttranslational modification]; other site 1249661009822 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 1249661009823 active pocket/dimerization site; other site 1249661009824 active site 1249661009825 phosphorylation site [posttranslational modification] 1249661009826 glutathione synthetase; Provisional; Region: PRK05246 1249661009827 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1249661009828 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1249661009829 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 1249661009830 Glutamate-cysteine ligase; Region: GshA; pfam08886 1249661009831 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1249661009832 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1249661009833 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1249661009834 Membrane fusogenic activity; Region: BMFP; pfam04380 1249661009835 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1249661009836 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1249661009837 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1249661009838 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1249661009839 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1249661009840 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 1249661009841 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661009842 catalytic residues [active] 1249661009843 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1249661009844 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 1249661009845 active site 1249661009846 phosphorylation site [posttranslational modification] 1249661009847 intermolecular recognition site; other site 1249661009848 dimerization interface [polypeptide binding]; other site 1249661009849 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 1249661009850 Walker A motif; other site 1249661009851 ATP binding site [chemical binding]; other site 1249661009852 Walker B motif; other site 1249661009853 arginine finger; other site 1249661009854 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661009855 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1249661009856 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 1249661009857 dimer interface [polypeptide binding]; other site 1249661009858 phosphorylation site [posttranslational modification] 1249661009859 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 1249661009860 ATP binding site [chemical binding]; other site 1249661009861 Mg2+ binding site [ion binding]; other site 1249661009862 G-X-G motif; other site 1249661009863 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1249661009864 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1249661009865 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1249661009866 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1249661009867 Na binding site [ion binding]; other site 1249661009868 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1249661009869 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661009870 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661009871 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1249661009872 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1249661009873 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1249661009874 active site 1249661009875 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1249661009876 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1249661009877 FAD binding site [chemical binding]; other site 1249661009878 substrate binding site [chemical binding]; other site 1249661009879 catalytic base [active] 1249661009880 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 1249661009881 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1249661009882 substrate binding site [chemical binding]; other site 1249661009883 oxyanion hole (OAH) forming residues; other site 1249661009884 trimer interface [polypeptide binding]; other site 1249661009885 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1249661009886 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1249661009887 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1249661009888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661009889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661009890 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 1249661009891 putative effector binding pocket; other site 1249661009892 dimerization interface [polypeptide binding]; other site 1249661009893 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1249661009894 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1249661009895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661009896 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 1249661009897 putative effector binding pocket; other site 1249661009898 putative dimerization interface [polypeptide binding]; other site 1249661009899 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1249661009900 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1249661009901 putative NAD(P) binding site [chemical binding]; other site 1249661009902 lipoyl synthase; Provisional; Region: PRK05481 1249661009903 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 1249661009904 FeS/SAM binding site; other site 1249661009905 lipoate-protein ligase B; Provisional; Region: PRK14343 1249661009906 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1249661009907 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249661009908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661009909 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 1249661009910 dimerization interface [polypeptide binding]; other site 1249661009911 substrate binding pocket [chemical binding]; other site 1249661009912 hypothetical protein; Provisional; Region: PRK02047 1249661009913 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 1249661009914 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1249661009915 homodimer interface [polypeptide binding]; other site 1249661009916 substrate-cofactor binding pocket; other site 1249661009917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661009918 catalytic residue [active] 1249661009919 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1249661009920 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1249661009921 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1249661009922 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1249661009923 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 1249661009924 dimer interface [polypeptide binding]; other site 1249661009925 [2Fe-2S] cluster binding site [ion binding]; other site 1249661009926 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1249661009927 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1249661009928 mce related protein; Region: MCE; pfam02470 1249661009929 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1249661009930 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1249661009931 Walker A/P-loop; other site 1249661009932 ATP binding site [chemical binding]; other site 1249661009933 Q-loop/lid; other site 1249661009934 ABC transporter signature motif; other site 1249661009935 Walker B; other site 1249661009936 D-loop; other site 1249661009937 H-loop/switch region; other site 1249661009938 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1249661009939 Permease; Region: Permease; pfam02405 1249661009940 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1249661009941 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1249661009942 active site 1249661009943 metal binding site [ion binding]; metal-binding site 1249661009944 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1249661009945 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1249661009946 Sel1-like repeats; Region: SEL1; smart00671 1249661009947 Sel1-like repeats; Region: SEL1; smart00671 1249661009948 biotin--protein ligase; Provisional; Region: PRK06955 1249661009949 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1249661009950 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1249661009951 pantothenate kinase; Reviewed; Region: PRK13328 1249661009952 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1249661009953 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1249661009954 active site 1249661009955 HIGH motif; other site 1249661009956 nucleotide binding site [chemical binding]; other site 1249661009957 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1249661009958 dinuclear metal binding motif [ion binding]; other site 1249661009959 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1249661009960 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1249661009961 active site 1249661009962 nucleophile elbow; other site 1249661009963 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1249661009964 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 1249661009965 substrate binding site [chemical binding]; other site 1249661009966 oxyanion hole (OAH) forming residues; other site 1249661009967 trimer interface [polypeptide binding]; other site 1249661009968 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 1249661009969 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 1249661009970 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1249661009971 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249661009972 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661009973 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1249661009974 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 1249661009975 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1249661009976 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1249661009977 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1249661009978 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 1249661009979 substrate binding pocket [chemical binding]; other site 1249661009980 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 1249661009981 B12 binding site [chemical binding]; other site 1249661009982 cobalt ligand [ion binding]; other site 1249661009983 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1249661009984 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1249661009985 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1249661009986 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1249661009987 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1249661009988 active site 1249661009989 HIGH motif; other site 1249661009990 KMSK motif region; other site 1249661009991 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1249661009992 tRNA binding surface [nucleotide binding]; other site 1249661009993 anticodon binding site; other site 1249661009994 Sporulation related domain; Region: SPOR; pfam05036 1249661009995 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 1249661009996 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1249661009997 catalytic residues [active] 1249661009998 hinge region; other site 1249661009999 alpha helical domain; other site 1249661010000 short chain dehydrogenase; Provisional; Region: PRK07024 1249661010001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661010002 NAD(P) binding site [chemical binding]; other site 1249661010003 active site 1249661010004 short chain dehydrogenase; Validated; Region: PRK08264 1249661010005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661010006 NAD(P) binding site [chemical binding]; other site 1249661010007 active site 1249661010008 MarR family; Region: MarR_2; cl17246 1249661010009 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1249661010010 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249661010011 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249661010012 peptide binding site [polypeptide binding]; other site 1249661010013 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1249661010014 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1249661010015 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1249661010016 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 1249661010017 active site clefts [active] 1249661010018 zinc binding site [ion binding]; other site 1249661010019 dimer interface [polypeptide binding]; other site 1249661010020 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1249661010021 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 1249661010022 dimer interface [polypeptide binding]; other site 1249661010023 active site 1249661010024 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1249661010025 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1249661010026 NADP binding site [chemical binding]; other site 1249661010027 homodimer interface [polypeptide binding]; other site 1249661010028 active site 1249661010029 hypothetical protein; Provisional; Region: PRK01842 1249661010030 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1249661010031 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1249661010032 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 1249661010033 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 1249661010034 inhibitor-cofactor binding pocket; inhibition site 1249661010035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661010036 catalytic residue [active] 1249661010037 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1249661010038 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1249661010039 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661010040 catalytic residue [active] 1249661010041 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1249661010042 AAA domain; Region: AAA_26; pfam13500 1249661010043 biotin synthase; Region: bioB; TIGR00433 1249661010044 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 1249661010045 FeS/SAM binding site; other site 1249661010046 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1249661010047 CutC family; Region: CutC; cl01218 1249661010048 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1249661010049 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1249661010050 active site 1249661010051 dimer interface [polypeptide binding]; other site 1249661010052 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1249661010053 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1249661010054 active site 1249661010055 dimer interface [polypeptide binding]; other site 1249661010056 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 1249661010057 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1249661010058 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 1249661010059 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 1249661010060 dimer interface [polypeptide binding]; other site 1249661010061 PYR/PP interface [polypeptide binding]; other site 1249661010062 TPP binding site [chemical binding]; other site 1249661010063 substrate binding site [chemical binding]; other site 1249661010064 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 1249661010065 TPP-binding site; other site 1249661010066 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1249661010067 Inward rectifier potassium channel; Region: IRK; pfam01007 1249661010068 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1249661010069 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1249661010070 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1249661010071 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1249661010072 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1249661010073 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1249661010074 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1249661010075 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1249661010076 dimer interface [polypeptide binding]; other site 1249661010077 active site 1249661010078 catalytic residue [active] 1249661010079 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661010080 Predicted membrane protein [Function unknown]; Region: COG4541 1249661010081 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1249661010082 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661010083 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 1249661010084 putative DNA binding site [nucleotide binding]; other site 1249661010085 putative Zn2+ binding site [ion binding]; other site 1249661010086 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661010087 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 1249661010088 glutathionine S-transferase; Provisional; Region: PRK10542 1249661010089 C-terminal domain interface [polypeptide binding]; other site 1249661010090 GSH binding site (G-site) [chemical binding]; other site 1249661010091 dimer interface [polypeptide binding]; other site 1249661010092 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1249661010093 dimer interface [polypeptide binding]; other site 1249661010094 N-terminal domain interface [polypeptide binding]; other site 1249661010095 substrate binding pocket (H-site) [chemical binding]; other site 1249661010096 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249661010097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661010098 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 1249661010099 dimerization interface [polypeptide binding]; other site 1249661010100 substrate binding pocket [chemical binding]; other site 1249661010101 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1249661010102 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1249661010103 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1249661010104 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1249661010105 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1249661010106 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249661010107 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 1249661010108 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661010109 putative metal binding site [ion binding]; other site 1249661010110 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1249661010111 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1249661010112 putative ligand binding site [chemical binding]; other site 1249661010113 NAD binding site [chemical binding]; other site 1249661010114 dimerization interface [polypeptide binding]; other site 1249661010115 catalytic site [active] 1249661010116 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1249661010117 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1249661010118 active site 1249661010119 catalytic residues [active] 1249661010120 metal binding site [ion binding]; metal-binding site 1249661010121 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 1249661010122 putative deacylase active site [active] 1249661010123 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1249661010124 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249661010125 EamA-like transporter family; Region: EamA; pfam00892 1249661010126 EamA-like transporter family; Region: EamA; pfam00892 1249661010127 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661010128 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 1249661010129 dimerization interface [polypeptide binding]; other site 1249661010130 putative DNA binding site [nucleotide binding]; other site 1249661010131 putative Zn2+ binding site [ion binding]; other site 1249661010132 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661010133 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1249661010134 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1249661010135 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 1249661010136 FMN binding site [chemical binding]; other site 1249661010137 substrate binding site [chemical binding]; other site 1249661010138 putative catalytic residue [active] 1249661010139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661010140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661010141 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 1249661010142 putative effector binding pocket; other site 1249661010143 dimerization interface [polypeptide binding]; other site 1249661010144 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 1249661010145 trimer interface [polypeptide binding]; other site 1249661010146 eyelet of channel; other site 1249661010147 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661010148 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1249661010149 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1249661010150 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1249661010151 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661010152 dimer interface [polypeptide binding]; other site 1249661010153 putative CheW interface [polypeptide binding]; other site 1249661010154 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249661010155 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249661010156 DNA binding site [nucleotide binding] 1249661010157 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 1249661010158 ligand binding site [chemical binding]; other site 1249661010159 dimerization interface [polypeptide binding]; other site 1249661010160 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 1249661010161 dimerization interface [polypeptide binding]; other site 1249661010162 putative active cleft [active] 1249661010163 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 1249661010164 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661010165 putative substrate binding site [chemical binding]; other site 1249661010166 putative ATP binding site [chemical binding]; other site 1249661010167 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 1249661010168 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1249661010169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661010170 NAD(P) binding site [chemical binding]; other site 1249661010171 active site 1249661010172 Dihydroneopterin aldolase; Region: FolB; smart00905 1249661010173 active site 1249661010174 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1249661010175 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 1249661010176 Ligand Binding Site [chemical binding]; other site 1249661010177 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1249661010178 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1249661010179 Substrate binding site; other site 1249661010180 Mg++ binding site; other site 1249661010181 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 1249661010182 active site 1249661010183 substrate binding site [chemical binding]; other site 1249661010184 CoA binding site [chemical binding]; other site 1249661010185 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1249661010186 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 1249661010187 glutaminase active site [active] 1249661010188 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 1249661010189 dimer interface [polypeptide binding]; other site 1249661010190 active site 1249661010191 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 1249661010192 dimer interface [polypeptide binding]; other site 1249661010193 active site 1249661010194 Repair protein; Region: Repair_PSII; pfam04536 1249661010195 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1249661010196 Repair protein; Region: Repair_PSII; pfam04536 1249661010197 LemA family; Region: LemA; pfam04011 1249661010198 YHS domain; Region: YHS; pfam04945 1249661010199 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1249661010200 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1249661010201 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1249661010202 argininosuccinate synthase; Validated; Region: PRK05370 1249661010203 argininosuccinate synthase; Provisional; Region: PRK13820 1249661010204 glutathione reductase; Validated; Region: PRK06116 1249661010205 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661010206 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661010207 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1249661010208 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1249661010209 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1249661010210 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1249661010211 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 1249661010212 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 1249661010213 ligand binding site; other site 1249661010214 putative membrane protein; Region: HpnL; TIGR03476 1249661010215 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661010216 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 1249661010217 trimer interface [polypeptide binding]; other site 1249661010218 eyelet of channel; other site 1249661010219 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1249661010220 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1249661010221 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1249661010222 PhnA protein; Region: PhnA; pfam03831 1249661010223 Chromate transporter; Region: Chromate_transp; pfam02417 1249661010224 Chromate transporter; Region: Chromate_transp; pfam02417 1249661010225 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661010226 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1249661010227 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 1249661010228 dimerization interface [polypeptide binding]; other site 1249661010229 substrate binding pocket [chemical binding]; other site 1249661010230 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1249661010231 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1249661010232 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1249661010233 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1249661010234 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1249661010235 Flagellar regulator YcgR; Region: YcgR; pfam07317 1249661010236 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1249661010237 PilZ domain; Region: PilZ; pfam07238 1249661010238 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 1249661010239 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1249661010240 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1249661010241 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1249661010242 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1249661010243 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 1249661010244 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1249661010245 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 1249661010246 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1249661010247 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1249661010248 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1249661010249 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1249661010250 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1249661010251 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1249661010252 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1249661010253 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1249661010254 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1249661010255 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1249661010256 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1249661010257 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1249661010258 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1249661010259 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1249661010260 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1249661010261 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 1249661010262 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1249661010263 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1249661010264 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1249661010265 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 1249661010266 FlgN protein; Region: FlgN; pfam05130 1249661010267 Killing trait; Region: RebB; pfam11747 1249661010268 Killing trait; Region: RebB; pfam11747 1249661010269 Killing trait; Region: RebB; pfam11747 1249661010270 Killing trait; Region: RebB; pfam11747 1249661010271 Killing trait; Region: RebB; pfam11747 1249661010272 Killing trait; Region: RebB; pfam11747 1249661010273 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1249661010274 active site 1249661010275 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 1249661010276 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 1249661010277 Walker A motif; other site 1249661010278 ATP binding site [chemical binding]; other site 1249661010279 Walker B motif; other site 1249661010280 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661010281 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661010282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661010283 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661010284 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 1249661010285 active site 1249661010286 phosphorylation site [posttranslational modification] 1249661010287 intermolecular recognition site; other site 1249661010288 dimerization interface [polypeptide binding]; other site 1249661010289 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 1249661010290 DNA binding site [nucleotide binding] 1249661010291 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661010292 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 1249661010293 dimer interface [polypeptide binding]; other site 1249661010294 phosphorylation site [posttranslational modification] 1249661010295 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 1249661010296 ATP binding site [chemical binding]; other site 1249661010297 Mg2+ binding site [ion binding]; other site 1249661010298 G-X-G motif; other site 1249661010299 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661010300 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 1249661010301 active site 1249661010302 phosphorylation site [posttranslational modification] 1249661010303 intermolecular recognition site; other site 1249661010304 dimerization interface [polypeptide binding]; other site 1249661010305 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1249661010306 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1249661010307 active site 1249661010308 NTP binding site [chemical binding]; other site 1249661010309 metal binding triad [ion binding]; metal-binding site 1249661010310 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1249661010311 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 1249661010312 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661010313 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 1249661010314 putative C-terminal domain interface [polypeptide binding]; other site 1249661010315 putative GSH binding site (G-site) [chemical binding]; other site 1249661010316 putative dimer interface [polypeptide binding]; other site 1249661010317 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1249661010318 putative dimer interface [polypeptide binding]; other site 1249661010319 putative N-terminal domain interface [polypeptide binding]; other site 1249661010320 putative substrate binding pocket (H-site) [chemical binding]; other site 1249661010321 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1249661010322 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1249661010323 putative NAD(P) binding site [chemical binding]; other site 1249661010324 active site 1249661010325 lytic murein transglycosylase; Provisional; Region: PRK11619 1249661010326 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 1249661010327 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249661010328 catalytic residue [active] 1249661010329 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1249661010330 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1249661010331 MarR family; Region: MarR_2; cl17246 1249661010332 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1249661010333 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1249661010334 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1249661010335 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1249661010336 putative active site [active] 1249661010337 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1249661010338 Predicted membrane protein [Function unknown]; Region: COG3817 1249661010339 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1249661010340 TraB family; Region: TraB; pfam01963 1249661010341 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1249661010342 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661010343 Walker A/P-loop; other site 1249661010344 ATP binding site [chemical binding]; other site 1249661010345 Q-loop/lid; other site 1249661010346 ABC transporter signature motif; other site 1249661010347 Walker B; other site 1249661010348 D-loop; other site 1249661010349 H-loop/switch region; other site 1249661010350 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1249661010351 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1249661010352 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661010353 Walker A/P-loop; other site 1249661010354 ATP binding site [chemical binding]; other site 1249661010355 Q-loop/lid; other site 1249661010356 ABC transporter signature motif; other site 1249661010357 Walker B; other site 1249661010358 D-loop; other site 1249661010359 H-loop/switch region; other site 1249661010360 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661010361 dipeptide transporter; Provisional; Region: PRK10913 1249661010362 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 1249661010363 dimer interface [polypeptide binding]; other site 1249661010364 conserved gate region; other site 1249661010365 putative PBP binding loops; other site 1249661010366 ABC-ATPase subunit interface; other site 1249661010367 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1249661010368 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 1249661010369 dimer interface [polypeptide binding]; other site 1249661010370 conserved gate region; other site 1249661010371 putative PBP binding loops; other site 1249661010372 ABC-ATPase subunit interface; other site 1249661010373 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249661010374 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249661010375 peptide binding site [polypeptide binding]; other site 1249661010376 citrate-proton symporter; Provisional; Region: PRK15075 1249661010377 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661010378 putative substrate translocation pore; other site 1249661010379 High potential iron-sulfur protein; Region: HIPIP; pfam01355 1249661010380 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1249661010381 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1249661010382 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 1249661010383 Walker A motif; other site 1249661010384 ATP binding site [chemical binding]; other site 1249661010385 Walker B motif; other site 1249661010386 arginine finger; other site 1249661010387 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1249661010388 putative catalytic site [active] 1249661010389 putative phosphate binding site [ion binding]; other site 1249661010390 putative metal binding site [ion binding]; other site 1249661010391 LysE type translocator; Region: LysE; cl00565 1249661010392 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1249661010393 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 1249661010394 FAD binding pocket [chemical binding]; other site 1249661010395 FAD binding motif [chemical binding]; other site 1249661010396 phosphate binding motif [ion binding]; other site 1249661010397 beta-alpha-beta structure motif; other site 1249661010398 NAD binding pocket [chemical binding]; other site 1249661010399 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1249661010400 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 1249661010401 ATP binding site [chemical binding]; other site 1249661010402 Mg2+ binding site [ion binding]; other site 1249661010403 G-X-G motif; other site 1249661010404 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661010405 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 1249661010406 active site 1249661010407 phosphorylation site [posttranslational modification] 1249661010408 intermolecular recognition site; other site 1249661010409 dimerization interface [polypeptide binding]; other site 1249661010410 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 1249661010411 DNA binding residues [nucleotide binding] 1249661010412 dimerization interface [polypeptide binding]; other site 1249661010413 amino acid transporter; Region: 2A0306; TIGR00909 1249661010414 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1249661010415 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1249661010416 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1249661010417 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1249661010418 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249661010419 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249661010420 DNA binding site [nucleotide binding] 1249661010421 domain linker motif; other site 1249661010422 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 1249661010423 dimerization interface [polypeptide binding]; other site 1249661010424 ligand binding site [chemical binding]; other site 1249661010425 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1249661010426 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1249661010427 Walker A/P-loop; other site 1249661010428 ATP binding site [chemical binding]; other site 1249661010429 Q-loop/lid; other site 1249661010430 ABC transporter signature motif; other site 1249661010431 Walker B; other site 1249661010432 D-loop; other site 1249661010433 H-loop/switch region; other site 1249661010434 TOBE domain; Region: TOBE; pfam03459 1249661010435 TOBE domain; Region: TOBE_2; pfam08402 1249661010436 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1249661010437 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1249661010438 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1249661010439 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1249661010440 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1249661010441 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 1249661010442 dimer interface [polypeptide binding]; other site 1249661010443 putative PBP binding loops; other site 1249661010444 ABC-ATPase subunit interface; other site 1249661010445 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1249661010446 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 1249661010447 dimer interface [polypeptide binding]; other site 1249661010448 conserved gate region; other site 1249661010449 putative PBP binding loops; other site 1249661010450 ABC-ATPase subunit interface; other site 1249661010451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1249661010452 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1249661010453 Flagellar protein FliT; Region: FliT; pfam05400 1249661010454 Flagellar protein FliS; Region: FliS; cl00654 1249661010455 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1249661010456 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1249661010457 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1249661010458 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1249661010459 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1249661010460 FliG C-terminal domain; Region: FliG_C; pfam01706 1249661010461 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1249661010462 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1249661010463 Flagellar assembly protein FliH; Region: FliH; pfam02108 1249661010464 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1249661010465 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 1249661010466 Walker A motif/ATP binding site; other site 1249661010467 Walker B motif; other site 1249661010468 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1249661010469 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1249661010470 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1249661010471 choline dehydrogenase; Validated; Region: PRK02106 1249661010472 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1249661010473 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1249661010474 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661010475 active site 1249661010476 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1249661010477 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1249661010478 NAD(P) binding site [chemical binding]; other site 1249661010479 catalytic residues [active] 1249661010480 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661010481 D-galactonate transporter; Region: 2A0114; TIGR00893 1249661010482 putative substrate translocation pore; other site 1249661010483 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1249661010484 Strictosidine synthase; Region: Str_synth; pfam03088 1249661010485 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661010486 extended (e) SDRs; Region: SDR_e; cd08946 1249661010487 NAD(P) binding site [chemical binding]; other site 1249661010488 active site 1249661010489 substrate binding site [chemical binding]; other site 1249661010490 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1249661010491 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1249661010492 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1249661010493 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1249661010494 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 1249661010495 active site 1249661010496 tetramer interface [polypeptide binding]; other site 1249661010497 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1249661010498 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 1249661010499 active site 1249661010500 tetramer interface [polypeptide binding]; other site 1249661010501 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661010502 D-galactonate transporter; Region: 2A0114; TIGR00893 1249661010503 putative substrate translocation pore; other site 1249661010504 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1249661010505 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1249661010506 dimer interface [polypeptide binding]; other site 1249661010507 NADP binding site [chemical binding]; other site 1249661010508 catalytic residues [active] 1249661010509 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1249661010510 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1249661010511 putative active site [active] 1249661010512 catalytic residue [active] 1249661010513 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1249661010514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661010515 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 1249661010516 putative dimerization interface [polypeptide binding]; other site 1249661010517 putative substrate binding pocket [chemical binding]; other site 1249661010518 serine/threonine protein kinase; Provisional; Region: PRK11768 1249661010519 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1249661010520 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661010521 putative substrate translocation pore; other site 1249661010522 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1249661010523 EamA-like transporter family; Region: EamA; pfam00892 1249661010524 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 1249661010525 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1249661010526 active site 1249661010527 catalytic tetrad [active] 1249661010528 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 1249661010529 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1249661010530 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1249661010531 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1249661010532 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1249661010533 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1249661010534 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1249661010535 putative acyl-acceptor binding pocket; other site 1249661010536 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1249661010537 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1249661010538 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1249661010539 Protein of unknown function, DUF484; Region: DUF484; cl17449 1249661010540 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1249661010541 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 1249661010542 active site 1249661010543 DNA binding site [nucleotide binding] 1249661010544 Int/Topo IB signature motif; other site 1249661010545 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1249661010546 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1249661010547 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1249661010548 putative RNA binding site [nucleotide binding]; other site 1249661010549 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 1249661010550 S-adenosylmethionine binding site [chemical binding]; other site 1249661010551 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1249661010552 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 1249661010553 P-loop, Walker A motif; other site 1249661010554 Base recognition motif; other site 1249661010555 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1249661010556 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1249661010557 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 1249661010558 active site 1249661010559 HslU subunit interaction site [polypeptide binding]; other site 1249661010560 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1249661010561 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 1249661010562 Walker A motif; other site 1249661010563 ATP binding site [chemical binding]; other site 1249661010564 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1249661010565 Walker B motif; other site 1249661010566 arginine finger; other site 1249661010567 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1249661010568 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1249661010569 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 1249661010570 active site 1249661010571 phosphorylation site [posttranslational modification] 1249661010572 intermolecular recognition site; other site 1249661010573 dimerization interface [polypeptide binding]; other site 1249661010574 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661010575 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661010576 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 1249661010577 dimer interface [polypeptide binding]; other site 1249661010578 phosphorylation site [posttranslational modification] 1249661010579 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 1249661010580 ATP binding site [chemical binding]; other site 1249661010581 Mg2+ binding site [ion binding]; other site 1249661010582 G-X-G motif; other site 1249661010583 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1249661010584 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 1249661010585 feedback inhibition sensing region; other site 1249661010586 homohexameric interface [polypeptide binding]; other site 1249661010587 nucleotide binding site [chemical binding]; other site 1249661010588 N-acetyl-L-glutamate binding site [chemical binding]; other site 1249661010589 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1249661010590 division inhibitor protein; Provisional; Region: slmA; PRK09480 1249661010591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661010592 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1249661010593 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1249661010594 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 1249661010595 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1249661010596 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661010597 putative substrate translocation pore; other site 1249661010598 Peptidase family M48; Region: Peptidase_M48; cl12018 1249661010599 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1249661010600 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661010601 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661010602 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1249661010603 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1249661010604 putative NAD(P) binding site [chemical binding]; other site 1249661010605 putative substrate binding site [chemical binding]; other site 1249661010606 catalytic Zn binding site [ion binding]; other site 1249661010607 structural Zn binding site [ion binding]; other site 1249661010608 dimer interface [polypeptide binding]; other site 1249661010609 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1249661010610 putative active site [active] 1249661010611 putative catalytic site [active] 1249661010612 putative DNA binding site [nucleotide binding]; other site 1249661010613 putative phosphate binding site [ion binding]; other site 1249661010614 metal binding site A [ion binding]; metal-binding site 1249661010615 putative AP binding site [nucleotide binding]; other site 1249661010616 putative metal binding site B [ion binding]; other site 1249661010617 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1249661010618 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1249661010619 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1249661010620 GatB domain; Region: GatB_Yqey; smart00845 1249661010621 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1249661010622 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1249661010623 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1249661010624 rod shape-determining protein MreB; Provisional; Region: PRK13927 1249661010625 MreB and similar proteins; Region: MreB_like; cd10225 1249661010626 nucleotide binding site [chemical binding]; other site 1249661010627 Mg binding site [ion binding]; other site 1249661010628 putative protofilament interaction site [polypeptide binding]; other site 1249661010629 RodZ interaction site [polypeptide binding]; other site 1249661010630 rod shape-determining protein MreC; Provisional; Region: PRK13922 1249661010631 rod shape-determining protein MreC; Region: MreC; pfam04085 1249661010632 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1249661010633 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1249661010634 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1249661010635 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1249661010636 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1249661010637 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1249661010638 Sel1-like repeats; Region: SEL1; smart00671 1249661010639 Sel1-like repeats; Region: SEL1; smart00671 1249661010640 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1249661010641 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1249661010642 active site 1249661010643 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1249661010644 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 1249661010645 FeS/SAM binding site; other site 1249661010646 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 1249661010647 Ligand Binding Site [chemical binding]; other site 1249661010648 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661010649 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 1249661010650 active site 1249661010651 phosphorylation site [posttranslational modification] 1249661010652 intermolecular recognition site; other site 1249661010653 dimerization interface [polypeptide binding]; other site 1249661010654 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1249661010655 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1249661010656 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 1249661010657 dimerization interface [polypeptide binding]; other site 1249661010658 PAS domain; Region: PAS; smart00091 1249661010659 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 1249661010660 dimer interface [polypeptide binding]; other site 1249661010661 phosphorylation site [posttranslational modification] 1249661010662 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 1249661010663 ATP binding site [chemical binding]; other site 1249661010664 Mg2+ binding site [ion binding]; other site 1249661010665 G-X-G motif; other site 1249661010666 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1249661010667 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1249661010668 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 1249661010669 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 1249661010670 S-adenosylmethionine binding site [chemical binding]; other site 1249661010671 M48 family peptidase; Provisional; Region: PRK03001 1249661010672 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661010673 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1249661010674 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1249661010675 putative active site [active] 1249661010676 substrate binding site [chemical binding]; other site 1249661010677 putative cosubstrate binding site; other site 1249661010678 catalytic site [active] 1249661010679 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1249661010680 substrate binding site [chemical binding]; other site 1249661010681 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 1249661010682 active site 1249661010683 catalytic residues [active] 1249661010684 metal binding site [ion binding]; metal-binding site 1249661010685 DNA protecting protein DprA; Region: dprA; TIGR00732 1249661010686 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1249661010687 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 1249661010688 catalytic residues [active] 1249661010689 DNA topoisomerase III; Validated; Region: PRK08173 1249661010690 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 1249661010691 active site 1249661010692 putative interdomain interaction site [polypeptide binding]; other site 1249661010693 putative metal-binding site [ion binding]; other site 1249661010694 putative nucleotide binding site [chemical binding]; other site 1249661010695 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 1249661010696 domain I; other site 1249661010697 DNA binding groove [nucleotide binding] 1249661010698 phosphate binding site [ion binding]; other site 1249661010699 domain II; other site 1249661010700 domain III; other site 1249661010701 nucleotide binding site [chemical binding]; other site 1249661010702 catalytic site [active] 1249661010703 domain IV; other site 1249661010704 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1249661010705 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1249661010706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661010707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661010708 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 1249661010709 putative effector binding pocket; other site 1249661010710 dimerization interface [polypeptide binding]; other site 1249661010711 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1249661010712 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1249661010713 dimerization interface [polypeptide binding]; other site 1249661010714 NAD binding site [chemical binding]; other site 1249661010715 ligand binding site [chemical binding]; other site 1249661010716 catalytic site [active] 1249661010717 Patatin-like phospholipase; Region: Patatin; pfam01734 1249661010718 active site 1249661010719 nucleophile elbow; other site 1249661010720 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1249661010721 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 1249661010722 CoenzymeA binding site [chemical binding]; other site 1249661010723 subunit interaction site [polypeptide binding]; other site 1249661010724 PHB binding site; other site 1249661010725 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661010726 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 1249661010727 trimer interface [polypeptide binding]; other site 1249661010728 eyelet of channel; other site 1249661010729 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661010730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661010731 H-NS histone family; Region: Histone_HNS; pfam00816 1249661010732 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1249661010733 ProQ/FINO family; Region: ProQ; pfam04352 1249661010734 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 1249661010735 putative RNA binding sites [nucleotide binding]; other site 1249661010736 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1249661010737 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 1249661010738 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1249661010739 nucleotide binding site [chemical binding]; other site 1249661010740 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1249661010741 SBD interface [polypeptide binding]; other site 1249661010742 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1249661010743 nucleotide binding site [chemical binding]; other site 1249661010744 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1249661010745 SBD interface [polypeptide binding]; other site 1249661010746 DNA-K related protein; Region: DUF3731; pfam12531 1249661010747 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1249661010748 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1249661010749 putative active site [active] 1249661010750 putative metal binding site [ion binding]; other site 1249661010751 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1249661010752 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1249661010753 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 1249661010754 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1249661010755 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 1249661010756 motif II; other site 1249661010757 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1249661010758 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249661010759 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 1249661010760 S-adenosylmethionine binding site [chemical binding]; other site 1249661010761 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1249661010762 Mannan-binding protein; Region: MVL; pfam12151 1249661010763 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 1249661010764 dimer interface [polypeptide binding]; other site 1249661010765 substrate binding site [chemical binding]; other site 1249661010766 ATP binding site [chemical binding]; other site 1249661010767 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 1249661010768 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 1249661010769 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 1249661010770 dimerization interface [polypeptide binding]; other site 1249661010771 active site 1249661010772 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 1249661010773 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 1249661010774 nudix motif; other site 1249661010775 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661010776 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1249661010777 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1249661010778 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1249661010779 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1249661010780 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1249661010781 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 1249661010782 Walker A motif; other site 1249661010783 ATP binding site [chemical binding]; other site 1249661010784 Walker B motif; other site 1249661010785 arginine finger; other site 1249661010786 Peptidase family M41; Region: Peptidase_M41; pfam01434 1249661010787 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1249661010788 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 1249661010789 active site 1249661010790 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 1249661010791 Predicted transcriptional regulator [Transcription]; Region: COG2345 1249661010792 MarR family; Region: MarR_2; pfam12802 1249661010793 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1249661010794 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1249661010795 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661010796 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661010797 multidrug efflux protein; Reviewed; Region: PRK09579 1249661010798 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1249661010799 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 1249661010800 dimerization interface [polypeptide binding]; other site 1249661010801 active site 1249661010802 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1249661010803 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1249661010804 structural tetrad; other site 1249661010805 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1249661010806 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1249661010807 structural tetrad; other site 1249661010808 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249661010809 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 1249661010810 S-adenosylmethionine binding site [chemical binding]; other site 1249661010811 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1249661010812 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1249661010813 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 1249661010814 catalytic motif [active] 1249661010815 Zn binding site [ion binding]; other site 1249661010816 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1249661010817 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 1249661010818 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 1249661010819 S-adenosylmethionine binding site [chemical binding]; other site 1249661010820 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661010821 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 1249661010822 active site 1249661010823 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661010824 putative substrate translocation pore; other site 1249661010825 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 1249661010826 PAS fold; Region: PAS_4; pfam08448 1249661010827 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 1249661010828 DNA binding residues [nucleotide binding] 1249661010829 dimerization interface [polypeptide binding]; other site 1249661010830 SnoaL-like domain; Region: SnoaL_2; pfam12680 1249661010831 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1249661010832 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 1249661010833 active site 1249661010834 FMN binding site [chemical binding]; other site 1249661010835 2,4-decadienoyl-CoA binding site; other site 1249661010836 catalytic residue [active] 1249661010837 4Fe-4S cluster binding site [ion binding]; other site 1249661010838 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1249661010839 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1249661010840 Predicted transcriptional regulators [Transcription]; Region: COG1695 1249661010841 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1249661010842 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1249661010843 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 1249661010844 ATP binding site [chemical binding]; other site 1249661010845 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 1249661010846 Ligand Binding Site [chemical binding]; other site 1249661010847 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 1249661010848 Ligand Binding Site [chemical binding]; other site 1249661010849 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1249661010850 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 1249661010851 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1249661010852 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1249661010853 hydrogenase 4 subunit F; Validated; Region: PRK06458 1249661010854 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1249661010855 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 1249661010856 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1249661010857 NADH dehydrogenase; Region: NADHdh; cl00469 1249661010858 hydrogenase 4 subunit B; Validated; Region: PRK06521 1249661010859 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1249661010860 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1249661010861 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 1249661010862 regulatory phosphorylation site [posttranslational modification]; other site 1249661010863 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 1249661010864 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1249661010865 UL43 envelope protein; Provisional; Region: PHA03175 1249661010866 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1249661010867 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661010868 putative substrate translocation pore; other site 1249661010869 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249661010870 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1249661010871 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1249661010872 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1249661010873 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1249661010874 4Fe-4S binding domain; Region: Fer4; cl02805 1249661010875 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1249661010876 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 1249661010877 [4Fe-4S] binding site [ion binding]; other site 1249661010878 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 1249661010879 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 1249661010880 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 1249661010881 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 1249661010882 molybdopterin cofactor binding site; other site 1249661010883 CHASE domain; Region: CHASE; cl01369 1249661010884 PAS domain S-box; Region: sensory_box; TIGR00229 1249661010885 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 1249661010886 putative active site [active] 1249661010887 heme pocket [chemical binding]; other site 1249661010888 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1249661010889 Histidine kinase; Region: HisKA_3; pfam07730 1249661010890 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 1249661010891 ATP binding site [chemical binding]; other site 1249661010892 Mg2+ binding site [ion binding]; other site 1249661010893 G-X-G motif; other site 1249661010894 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661010895 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 1249661010896 active site 1249661010897 phosphorylation site [posttranslational modification] 1249661010898 intermolecular recognition site; other site 1249661010899 dimerization interface [polypeptide binding]; other site 1249661010900 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 1249661010901 DNA binding residues [nucleotide binding] 1249661010902 dimerization interface [polypeptide binding]; other site 1249661010903 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661010904 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 1249661010905 active site 1249661010906 phosphorylation site [posttranslational modification] 1249661010907 intermolecular recognition site; other site 1249661010908 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1249661010909 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 1249661010910 ligand binding site [chemical binding]; other site 1249661010911 flexible hinge region; other site 1249661010912 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 1249661010913 putative switch regulator; other site 1249661010914 non-specific DNA interactions [nucleotide binding]; other site 1249661010915 DNA binding site [nucleotide binding] 1249661010916 sequence specific DNA binding site [nucleotide binding]; other site 1249661010917 putative cAMP binding site [chemical binding]; other site 1249661010918 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 1249661010919 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1249661010920 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1249661010921 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1249661010922 dimer interface [polypeptide binding]; other site 1249661010923 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1249661010924 active site 1249661010925 Fe binding site [ion binding]; other site 1249661010926 shikimate transporter; Provisional; Region: PRK09952 1249661010927 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661010928 putative substrate translocation pore; other site 1249661010929 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1249661010930 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1249661010931 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661010932 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661010933 DNA-binding site [nucleotide binding]; DNA binding site 1249661010934 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 1249661010935 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 1249661010936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661010937 homodimer interface [polypeptide binding]; other site 1249661010938 catalytic residue [active] 1249661010939 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1249661010940 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1249661010941 Predicted small secreted protein [Function unknown]; Region: COG5510 1249661010942 aspartate carbamoyltransferase; Provisional; Region: PRK11891 1249661010943 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1249661010944 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1249661010945 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1249661010946 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 1249661010947 N-terminal plug; other site 1249661010948 ligand-binding site [chemical binding]; other site 1249661010949 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1249661010950 Sel1-like repeats; Region: SEL1; smart00671 1249661010951 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1249661010952 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661010953 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661010954 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661010955 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1249661010956 Isochorismatase family; Region: Isochorismatase; pfam00857 1249661010957 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 1249661010958 catalytic triad [active] 1249661010959 conserved cis-peptide bond; other site 1249661010960 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1249661010961 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1249661010962 Homeodomain-like domain; Region: HTH_23; pfam13384 1249661010963 Winged helix-turn helix; Region: HTH_29; pfam13551 1249661010964 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1249661010965 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1249661010966 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1249661010967 Walker A/P-loop; other site 1249661010968 ATP binding site [chemical binding]; other site 1249661010969 Q-loop/lid; other site 1249661010970 ABC transporter signature motif; other site 1249661010971 Walker B; other site 1249661010972 D-loop; other site 1249661010973 H-loop/switch region; other site 1249661010974 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1249661010975 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1249661010976 Walker A/P-loop; other site 1249661010977 ATP binding site [chemical binding]; other site 1249661010978 Q-loop/lid; other site 1249661010979 ABC transporter signature motif; other site 1249661010980 Walker B; other site 1249661010981 D-loop; other site 1249661010982 H-loop/switch region; other site 1249661010983 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661010984 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 1249661010985 TM-ABC transporter signature motif; other site 1249661010986 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1249661010987 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 1249661010988 TM-ABC transporter signature motif; other site 1249661010989 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1249661010990 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 1249661010991 putative ligand binding site [chemical binding]; other site 1249661010992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661010993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661010994 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 1249661010995 dimerization interface [polypeptide binding]; other site 1249661010996 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1249661010997 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1249661010998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 1249661010999 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1249661011000 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1249661011001 muropeptide transporter; Validated; Region: ampG; cl17669 1249661011002 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1249661011003 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 1249661011004 N-terminal plug; other site 1249661011005 ligand-binding site [chemical binding]; other site 1249661011006 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1249661011007 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661011008 Walker A/P-loop; other site 1249661011009 ATP binding site [chemical binding]; other site 1249661011010 Q-loop/lid; other site 1249661011011 ABC transporter signature motif; other site 1249661011012 Walker B; other site 1249661011013 D-loop; other site 1249661011014 H-loop/switch region; other site 1249661011015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661011016 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1249661011017 Walker A/P-loop; other site 1249661011018 ATP binding site [chemical binding]; other site 1249661011019 Q-loop/lid; other site 1249661011020 ABC transporter signature motif; other site 1249661011021 Walker B; other site 1249661011022 D-loop; other site 1249661011023 H-loop/switch region; other site 1249661011024 Helix-turn-helix domain; Region: HTH_18; pfam12833 1249661011025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661011026 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 1249661011027 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661011028 catalytic residue [active] 1249661011029 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 1249661011030 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 1249661011031 ATP binding site [chemical binding]; other site 1249661011032 Transposase domain (DUF772); Region: DUF772; pfam05598 1249661011033 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661011034 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 1249661011035 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1249661011036 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661011037 dimer interface [polypeptide binding]; other site 1249661011038 putative CheW interface [polypeptide binding]; other site 1249661011039 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1249661011040 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1249661011041 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1249661011042 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 1249661011043 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1249661011044 ligand binding site [chemical binding]; other site 1249661011045 short chain dehydrogenase; Provisional; Region: PRK07074 1249661011046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661011047 NAD(P) binding site [chemical binding]; other site 1249661011048 active site 1249661011049 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1249661011050 putative cation:proton antiport protein; Provisional; Region: PRK10669 1249661011051 TrkA-N domain; Region: TrkA_N; pfam02254 1249661011052 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1249661011053 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1249661011054 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1249661011055 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1249661011056 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1249661011057 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1249661011058 Ligand binding site; other site 1249661011059 DXD motif; other site 1249661011060 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1249661011061 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1249661011062 active site 1249661011063 tetramer interface; other site 1249661011064 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 1249661011065 dimer interface [polypeptide binding]; other site 1249661011066 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1249661011067 Electron transfer DM13; Region: DM13; pfam10517 1249661011068 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1249661011069 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1249661011070 DNA binding residues [nucleotide binding] 1249661011071 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661011072 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1249661011073 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1249661011074 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1249661011075 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1249661011076 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 1249661011077 putative PBP binding loops; other site 1249661011078 dimer interface [polypeptide binding]; other site 1249661011079 ABC-ATPase subunit interface; other site 1249661011080 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1249661011081 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 1249661011082 inhibitor binding site; inhibition site 1249661011083 catalytic Zn binding site [ion binding]; other site 1249661011084 structural Zn binding site [ion binding]; other site 1249661011085 NADP binding site [chemical binding]; other site 1249661011086 tetramer interface [polypeptide binding]; other site 1249661011087 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1249661011088 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661011089 Walker A/P-loop; other site 1249661011090 ATP binding site [chemical binding]; other site 1249661011091 Q-loop/lid; other site 1249661011092 ABC transporter signature motif; other site 1249661011093 Walker B; other site 1249661011094 D-loop; other site 1249661011095 H-loop/switch region; other site 1249661011096 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1249661011097 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661011098 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661011099 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661011100 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1249661011101 N- and C-terminal domain interface [polypeptide binding]; other site 1249661011102 ribulokinase; Provisional; Region: PRK04123 1249661011103 active site 1249661011104 MgATP binding site [chemical binding]; other site 1249661011105 catalytic site [active] 1249661011106 metal binding site [ion binding]; metal-binding site 1249661011107 xylulose binding site [chemical binding]; other site 1249661011108 homodimer interface [polypeptide binding]; other site 1249661011109 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 1249661011110 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1249661011111 [4Fe-4S] binding site [ion binding]; other site 1249661011112 molybdopterin cofactor binding site; other site 1249661011113 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 1249661011114 molybdopterin cofactor binding site; other site 1249661011115 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 1249661011116 Flavodoxin; Region: Flavodoxin_1; pfam00258 1249661011117 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 1249661011118 FAD binding pocket [chemical binding]; other site 1249661011119 FAD binding motif [chemical binding]; other site 1249661011120 catalytic residues [active] 1249661011121 NAD binding pocket [chemical binding]; other site 1249661011122 phosphate binding motif [ion binding]; other site 1249661011123 beta-alpha-beta structure motif; other site 1249661011124 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 1249661011125 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1249661011126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661011127 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1249661011128 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1249661011129 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1249661011130 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1249661011131 active site 1249661011132 SAM binding site [chemical binding]; other site 1249661011133 homodimer interface [polypeptide binding]; other site 1249661011134 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1249661011135 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 1249661011136 active site 1249661011137 phosphorylation site [posttranslational modification] 1249661011138 intermolecular recognition site; other site 1249661011139 dimerization interface [polypeptide binding]; other site 1249661011140 ANTAR domain; Region: ANTAR; pfam03861 1249661011141 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1249661011142 NMT1-like family; Region: NMT1_2; pfam13379 1249661011143 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1249661011144 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1249661011145 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1249661011146 active site 1249661011147 Zn binding site [ion binding]; other site 1249661011148 allantoate amidohydrolase; Reviewed; Region: PRK12893 1249661011149 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1249661011150 active site 1249661011151 metal binding site [ion binding]; metal-binding site 1249661011152 dimer interface [polypeptide binding]; other site 1249661011153 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011154 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249661011155 putative substrate translocation pore; other site 1249661011156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661011157 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661011158 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 1249661011159 dimerization interface [polypeptide binding]; other site 1249661011160 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1249661011161 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661011162 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661011163 Peptidase M66; Region: Peptidase_M66; pfam10462 1249661011164 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1249661011165 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1249661011166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1249661011167 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661011168 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661011169 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1249661011170 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1249661011171 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 1249661011172 Domain of unknown function (DUF802); Region: DUF802; pfam05650 1249661011173 hypothetical protein; Provisional; Region: PRK09040 1249661011174 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661011175 ligand binding site [chemical binding]; other site 1249661011176 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1249661011177 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1249661011178 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1249661011179 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1249661011180 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1249661011181 threonine dehydratase; Reviewed; Region: PRK09224 1249661011182 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 1249661011183 tetramer interface [polypeptide binding]; other site 1249661011184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661011185 catalytic residue [active] 1249661011186 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1249661011187 putative Ile/Val binding site [chemical binding]; other site 1249661011188 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1249661011189 putative Ile/Val binding site [chemical binding]; other site 1249661011190 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1249661011191 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1249661011192 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1249661011193 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 1249661011194 linker region; other site 1249661011195 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661011196 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1249661011197 putative acyl-acceptor binding pocket; other site 1249661011198 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1249661011199 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 1249661011200 putative active site [active] 1249661011201 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249661011202 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1249661011203 Walker A/P-loop; other site 1249661011204 ATP binding site [chemical binding]; other site 1249661011205 Q-loop/lid; other site 1249661011206 ABC transporter signature motif; other site 1249661011207 Walker B; other site 1249661011208 D-loop; other site 1249661011209 H-loop/switch region; other site 1249661011210 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1249661011211 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1249661011212 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1249661011213 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1249661011214 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 1249661011215 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 1249661011216 ATP binding site [chemical binding]; other site 1249661011217 putative Mg++ binding site [ion binding]; other site 1249661011218 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 1249661011219 nucleotide binding region [chemical binding]; other site 1249661011220 ATP-binding site [chemical binding]; other site 1249661011221 DEAD/H associated; Region: DEAD_assoc; pfam08494 1249661011222 hypothetical protein; Provisional; Region: PHA02764 1249661011223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1249661011224 PAS domain S-box; Region: sensory_box; TIGR00229 1249661011225 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 1249661011226 putative active site [active] 1249661011227 heme pocket [chemical binding]; other site 1249661011228 PAS domain S-box; Region: sensory_box; TIGR00229 1249661011229 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 1249661011230 putative active site [active] 1249661011231 heme pocket [chemical binding]; other site 1249661011232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1249661011233 Histidine kinase; Region: HisKA_3; pfam07730 1249661011234 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 1249661011235 ATP binding site [chemical binding]; other site 1249661011236 Mg2+ binding site [ion binding]; other site 1249661011237 G-X-G motif; other site 1249661011238 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 1249661011239 dimerization interface [polypeptide binding]; other site 1249661011240 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 1249661011241 ATP binding site [chemical binding]; other site 1249661011242 Mg2+ binding site [ion binding]; other site 1249661011243 G-X-G motif; other site 1249661011244 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661011245 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 1249661011246 active site 1249661011247 phosphorylation site [posttranslational modification] 1249661011248 intermolecular recognition site; other site 1249661011249 dimerization interface [polypeptide binding]; other site 1249661011250 PAS domain S-box; Region: sensory_box; TIGR00229 1249661011251 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 1249661011252 putative active site [active] 1249661011253 heme pocket [chemical binding]; other site 1249661011254 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661011255 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661011256 metal binding site [ion binding]; metal-binding site 1249661011257 active site 1249661011258 I-site; other site 1249661011259 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 1249661011260 Amino acid permease; Region: AA_permease_2; pfam13520 1249661011261 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 1249661011262 dimerization interface [polypeptide binding]; other site 1249661011263 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 1249661011264 dimer interface [polypeptide binding]; other site 1249661011265 phosphorylation site [posttranslational modification] 1249661011266 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 1249661011267 ATP binding site [chemical binding]; other site 1249661011268 Mg2+ binding site [ion binding]; other site 1249661011269 G-X-G motif; other site 1249661011270 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 1249661011271 active site 1249661011272 phosphorylation site [posttranslational modification] 1249661011273 intermolecular recognition site; other site 1249661011274 dimerization interface [polypeptide binding]; other site 1249661011275 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1249661011276 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 1249661011277 active site 1249661011278 phosphorylation site [posttranslational modification] 1249661011279 intermolecular recognition site; other site 1249661011280 dimerization interface [polypeptide binding]; other site 1249661011281 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249661011282 Zn2+ binding site [ion binding]; other site 1249661011283 Mg2+ binding site [ion binding]; other site 1249661011284 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1249661011285 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249661011286 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1249661011287 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 1249661011288 S-adenosylmethionine binding site [chemical binding]; other site 1249661011289 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661011290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661011291 metal binding site [ion binding]; metal-binding site 1249661011292 active site 1249661011293 I-site; other site 1249661011294 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1249661011295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661011296 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 1249661011297 dimerization interface [polypeptide binding]; other site 1249661011298 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 1249661011299 heterodimer interface [polypeptide binding]; other site 1249661011300 multimer interface [polypeptide binding]; other site 1249661011301 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1249661011302 active site 1249661011303 protocatechuate 3,4-dioxygenase, alpha subunit; Region: protocat_alph; TIGR02423 1249661011304 active site 1249661011305 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1249661011306 SxDxEG motif; other site 1249661011307 active site 1249661011308 metal binding site [ion binding]; metal-binding site 1249661011309 homopentamer interface [polypeptide binding]; other site 1249661011310 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 1249661011311 homodimer interface [polypeptide binding]; other site 1249661011312 homotetramer interface [polypeptide binding]; other site 1249661011313 active site pocket [active] 1249661011314 cleavage site 1249661011315 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1249661011316 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1249661011317 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 1249661011318 dimer interface [polypeptide binding]; other site 1249661011319 conserved gate region; other site 1249661011320 putative PBP binding loops; other site 1249661011321 ABC-ATPase subunit interface; other site 1249661011322 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1249661011323 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 1249661011324 dimer interface [polypeptide binding]; other site 1249661011325 conserved gate region; other site 1249661011326 putative PBP binding loops; other site 1249661011327 ABC-ATPase subunit interface; other site 1249661011328 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1249661011329 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 1249661011330 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1249661011331 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661011332 Walker A/P-loop; other site 1249661011333 ATP binding site [chemical binding]; other site 1249661011334 Q-loop/lid; other site 1249661011335 ABC transporter signature motif; other site 1249661011336 Walker B; other site 1249661011337 D-loop; other site 1249661011338 H-loop/switch region; other site 1249661011339 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1249661011340 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661011341 Walker A/P-loop; other site 1249661011342 ATP binding site [chemical binding]; other site 1249661011343 Q-loop/lid; other site 1249661011344 ABC transporter signature motif; other site 1249661011345 Walker B; other site 1249661011346 D-loop; other site 1249661011347 H-loop/switch region; other site 1249661011348 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1249661011349 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 1249661011350 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 1249661011351 catalytic nucleophile [active] 1249661011352 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249661011353 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249661011354 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 1249661011355 putative active site [active] 1249661011356 BCCT family transporter; Region: BCCT; pfam02028 1249661011357 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1249661011358 Beta-lactamase; Region: Beta-lactamase; pfam00144 1249661011359 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1249661011360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661011361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661011362 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 1249661011363 dimerization interface [polypeptide binding]; other site 1249661011364 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_10; cd08515 1249661011365 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1249661011366 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1249661011367 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 1249661011368 dimer interface [polypeptide binding]; other site 1249661011369 conserved gate region; other site 1249661011370 putative PBP binding loops; other site 1249661011371 ABC-ATPase subunit interface; other site 1249661011372 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1249661011373 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 1249661011374 dimer interface [polypeptide binding]; other site 1249661011375 ABC-ATPase subunit interface; other site 1249661011376 putative PBP binding loops; other site 1249661011377 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1249661011378 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661011379 Walker A/P-loop; other site 1249661011380 ATP binding site [chemical binding]; other site 1249661011381 Q-loop/lid; other site 1249661011382 ABC transporter signature motif; other site 1249661011383 Walker B; other site 1249661011384 D-loop; other site 1249661011385 H-loop/switch region; other site 1249661011386 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661011387 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1249661011388 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661011389 Walker A/P-loop; other site 1249661011390 ATP binding site [chemical binding]; other site 1249661011391 Q-loop/lid; other site 1249661011392 ABC transporter signature motif; other site 1249661011393 Walker B; other site 1249661011394 D-loop; other site 1249661011395 H-loop/switch region; other site 1249661011396 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661011397 hypothetical protein; Provisional; Region: PRK07079 1249661011398 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 1249661011399 metal binding site [ion binding]; metal-binding site 1249661011400 putative dimer interface [polypeptide binding]; other site 1249661011401 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1249661011402 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249661011403 active site 1249661011404 HIGH motif; other site 1249661011405 nucleotide binding site [chemical binding]; other site 1249661011406 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1249661011407 active site 1249661011408 KMSKS motif; other site 1249661011409 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1249661011410 tRNA binding surface [nucleotide binding]; other site 1249661011411 anticodon binding site; other site 1249661011412 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249661011413 EamA-like transporter family; Region: EamA; pfam00892 1249661011414 EamA-like transporter family; Region: EamA; pfam00892 1249661011415 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1249661011416 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1249661011417 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1249661011418 FAD binding domain; Region: FAD_binding_4; pfam01565 1249661011419 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1249661011420 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249661011421 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 1249661011422 S-adenosylmethionine binding site [chemical binding]; other site 1249661011423 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1249661011424 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661011425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661011426 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1249661011427 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 1249661011428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661011429 catalytic residue [active] 1249661011430 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1249661011431 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 1249661011432 putative DNA binding site [nucleotide binding]; other site 1249661011433 putative Zn2+ binding site [ion binding]; other site 1249661011434 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661011435 LabA_like proteins; Region: LabA_like; cd06167 1249661011436 putative metal binding site [ion binding]; other site 1249661011437 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1249661011438 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1249661011439 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1249661011440 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011441 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1249661011442 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661011443 DNA-binding site [nucleotide binding]; DNA binding site 1249661011444 UTRA domain; Region: UTRA; pfam07702 1249661011445 benzoate transport; Region: 2A0115; TIGR00895 1249661011446 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011447 putative substrate translocation pore; other site 1249661011448 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1249661011449 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 1249661011450 active site 1249661011451 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1249661011452 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249661011453 active site 1249661011454 metal binding site [ion binding]; metal-binding site 1249661011455 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1249661011456 Cytochrome c; Region: Cytochrom_C; pfam00034 1249661011457 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1249661011458 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1249661011459 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 1249661011460 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1249661011461 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1249661011462 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661011463 Coenzyme A binding pocket [chemical binding]; other site 1249661011464 Predicted transporter component [General function prediction only]; Region: COG2391 1249661011465 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 1249661011466 dimerization interface [polypeptide binding]; other site 1249661011467 putative DNA binding site [nucleotide binding]; other site 1249661011468 putative Zn2+ binding site [ion binding]; other site 1249661011469 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1249661011470 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1249661011471 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 1249661011472 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661011473 catalytic residue [active] 1249661011474 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 1249661011475 non-specific DNA binding site [nucleotide binding]; other site 1249661011476 salt bridge; other site 1249661011477 sequence-specific DNA binding site [nucleotide binding]; other site 1249661011478 serine O-acetyltransferase; Region: cysE; TIGR01172 1249661011479 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 1249661011480 trimer interface [polypeptide binding]; other site 1249661011481 active site 1249661011482 substrate binding site [chemical binding]; other site 1249661011483 CoA binding site [chemical binding]; other site 1249661011484 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 1249661011485 active site residue [active] 1249661011486 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1249661011487 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1249661011488 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1249661011489 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661011490 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661011491 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661011492 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1249661011493 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1249661011494 Ligand binding site; other site 1249661011495 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1249661011496 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011497 putative substrate translocation pore; other site 1249661011498 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011499 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1249661011500 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1249661011501 active site 1249661011502 TDP-binding site; other site 1249661011503 acceptor substrate-binding pocket; other site 1249661011504 homodimer interface [polypeptide binding]; other site 1249661011505 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249661011506 transcriptional regulator BetI; Validated; Region: PRK00767 1249661011507 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661011508 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1249661011509 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1249661011510 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1249661011511 NAD(P) binding site [chemical binding]; other site 1249661011512 catalytic residues [active] 1249661011513 choline dehydrogenase; Validated; Region: PRK02106 1249661011514 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1249661011515 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 1249661011516 benzoate transport; Region: 2A0115; TIGR00895 1249661011517 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011518 putative substrate translocation pore; other site 1249661011519 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011520 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1249661011521 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 1249661011522 active site 1249661011523 phosphorylation site [posttranslational modification] 1249661011524 intermolecular recognition site; other site 1249661011525 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 1249661011526 PAS fold; Region: PAS_3; pfam08447 1249661011527 putative active site [active] 1249661011528 heme pocket [chemical binding]; other site 1249661011529 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1249661011530 Histidine kinase; Region: HisKA_3; pfam07730 1249661011531 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 1249661011532 ATP binding site [chemical binding]; other site 1249661011533 Mg2+ binding site [ion binding]; other site 1249661011534 G-X-G motif; other site 1249661011535 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661011536 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 1249661011537 active site 1249661011538 phosphorylation site [posttranslational modification] 1249661011539 intermolecular recognition site; other site 1249661011540 dimerization interface [polypeptide binding]; other site 1249661011541 CHASE3 domain; Region: CHASE3; pfam05227 1249661011542 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 1249661011543 PAS domain; Region: PAS_9; pfam13426 1249661011544 putative active site [active] 1249661011545 heme pocket [chemical binding]; other site 1249661011546 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1249661011547 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 1249661011548 putative active site [active] 1249661011549 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 1249661011550 dimer interface [polypeptide binding]; other site 1249661011551 phosphorylation site [posttranslational modification] 1249661011552 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 1249661011553 ATP binding site [chemical binding]; other site 1249661011554 Mg2+ binding site [ion binding]; other site 1249661011555 G-X-G motif; other site 1249661011556 OsmC-like protein; Region: OsmC; cl00767 1249661011557 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1249661011558 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1249661011559 putative ligand binding site [chemical binding]; other site 1249661011560 NAD binding site [chemical binding]; other site 1249661011561 catalytic site [active] 1249661011562 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 1249661011563 active site 1249661011564 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1249661011565 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1249661011566 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1249661011567 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661011568 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1249661011569 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1249661011570 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1249661011571 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1249661011572 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1249661011573 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1249661011574 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1249661011575 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1249661011576 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1249661011577 conserved cys residue [active] 1249661011578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661011579 hypothetical protein; Provisional; Region: PRK11239 1249661011580 Protein of unknown function, DUF480; Region: DUF480; pfam04337 1249661011581 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 1249661011582 glutathione s-transferase; Provisional; Region: PTZ00057 1249661011583 GSH binding site (G-site) [chemical binding]; other site 1249661011584 C-terminal domain interface [polypeptide binding]; other site 1249661011585 dimer interface [polypeptide binding]; other site 1249661011586 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 1249661011587 dimer interface [polypeptide binding]; other site 1249661011588 N-terminal domain interface [polypeptide binding]; other site 1249661011589 substrate binding pocket (H-site) [chemical binding]; other site 1249661011590 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1249661011591 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 1249661011592 Walker A motif; other site 1249661011593 ATP binding site [chemical binding]; other site 1249661011594 Walker B motif; other site 1249661011595 arginine finger; other site 1249661011596 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1249661011597 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 1249661011598 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 1249661011599 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1249661011600 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 1249661011601 Walker A motif; other site 1249661011602 ATP binding site [chemical binding]; other site 1249661011603 Walker B motif; other site 1249661011604 arginine finger; other site 1249661011605 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1249661011606 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1249661011607 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1249661011608 Base plate wedge protein 53; Region: Phage_gp53; cl17643 1249661011609 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661011610 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 1249661011611 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1249661011612 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1249661011613 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1249661011614 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1249661011615 Cupin domain; Region: Cupin_2; cl17218 1249661011616 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1249661011617 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1249661011618 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1249661011619 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661011620 DNA-binding site [nucleotide binding]; DNA binding site 1249661011621 FCD domain; Region: FCD; pfam07729 1249661011622 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1249661011623 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1249661011624 NAD binding site [chemical binding]; other site 1249661011625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1249661011626 putative aldolase; Validated; Region: PRK08130 1249661011627 intersubunit interface [polypeptide binding]; other site 1249661011628 active site 1249661011629 Zn2+ binding site [ion binding]; other site 1249661011630 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011631 D-galactonate transporter; Region: 2A0114; TIGR00893 1249661011632 putative substrate translocation pore; other site 1249661011633 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1249661011634 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661011635 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1249661011636 putative NAD(P) binding site [chemical binding]; other site 1249661011637 active site 1249661011638 putative substrate binding site [chemical binding]; other site 1249661011639 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1249661011640 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1249661011641 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1249661011642 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1249661011643 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1249661011644 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1249661011645 conserved cys residue [active] 1249661011646 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 1249661011647 metal binding site [ion binding]; metal-binding site 1249661011648 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 1249661011649 dimer interface [polypeptide binding]; other site 1249661011650 conserved gate region; other site 1249661011651 putative PBP binding loops; other site 1249661011652 ABC-ATPase subunit interface; other site 1249661011653 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1249661011654 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1249661011655 Walker A/P-loop; other site 1249661011656 ATP binding site [chemical binding]; other site 1249661011657 Q-loop/lid; other site 1249661011658 ABC transporter signature motif; other site 1249661011659 Walker B; other site 1249661011660 D-loop; other site 1249661011661 H-loop/switch region; other site 1249661011662 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 1249661011663 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1249661011664 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1249661011665 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 1249661011666 TPR motif; other site 1249661011667 binding surface 1249661011668 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 1249661011669 YadA-like C-terminal region; Region: YadA; pfam03895 1249661011670 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1249661011671 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1249661011672 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 1249661011673 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1249661011674 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1249661011675 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249661011676 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249661011677 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1249661011678 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 1249661011679 carboxyltransferase (CT) interaction site; other site 1249661011680 biotinylation site [posttranslational modification]; other site 1249661011681 enoyl-CoA hydratase; Provisional; Region: PRK05995 1249661011682 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 1249661011683 substrate binding site [chemical binding]; other site 1249661011684 oxyanion hole (OAH) forming residues; other site 1249661011685 trimer interface [polypeptide binding]; other site 1249661011686 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1249661011687 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1249661011688 isovaleryl-CoA dehydrogenase; Region: PLN02519 1249661011689 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1249661011690 substrate binding site [chemical binding]; other site 1249661011691 FAD binding site [chemical binding]; other site 1249661011692 catalytic base [active] 1249661011693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661011694 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661011695 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1249661011696 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 1249661011697 [2Fe-2S] cluster binding site [ion binding]; other site 1249661011698 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 1249661011699 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1249661011700 alpha subunit interface [polypeptide binding]; other site 1249661011701 active site 1249661011702 substrate binding site [chemical binding]; other site 1249661011703 Fe binding site [ion binding]; other site 1249661011704 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1249661011705 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1249661011706 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249661011707 catalytic residue [active] 1249661011708 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 1249661011709 Cupin-like domain; Region: Cupin_8; pfam13621 1249661011710 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1249661011711 benzoate transport; Region: 2A0115; TIGR00895 1249661011712 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011713 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011714 putative substrate translocation pore; other site 1249661011715 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661011716 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 1249661011717 putative C-terminal domain interface [polypeptide binding]; other site 1249661011718 putative GSH binding site (G-site) [chemical binding]; other site 1249661011719 putative dimer interface [polypeptide binding]; other site 1249661011720 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1249661011721 putative N-terminal domain interface [polypeptide binding]; other site 1249661011722 putative dimer interface [polypeptide binding]; other site 1249661011723 putative substrate binding pocket (H-site) [chemical binding]; other site 1249661011724 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1249661011725 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249661011726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249661011727 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1249661011728 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1249661011729 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1249661011730 active site 1249661011731 P-loop; other site 1249661011732 phosphorylation site [posttranslational modification] 1249661011733 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 1249661011734 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1249661011735 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 1249661011736 putative substrate binding site [chemical binding]; other site 1249661011737 putative ATP binding site [chemical binding]; other site 1249661011738 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 1249661011739 active site 1249661011740 phosphorylation site [posttranslational modification] 1249661011741 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 1249661011742 dimerization domain swap beta strand [polypeptide binding]; other site 1249661011743 regulatory protein interface [polypeptide binding]; other site 1249661011744 active site 1249661011745 regulatory phosphorylation site [posttranslational modification]; other site 1249661011746 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1249661011747 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1249661011748 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1249661011749 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1249661011750 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249661011751 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249661011752 DNA binding site [nucleotide binding] 1249661011753 domain linker motif; other site 1249661011754 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_4; cd06280 1249661011755 putative dimerization interface [polypeptide binding]; other site 1249661011756 putative ligand binding site [chemical binding]; other site 1249661011757 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661011758 aldehyde dehydrogenase family 7 member; Region: PLN02315 1249661011759 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1249661011760 tetrameric interface [polypeptide binding]; other site 1249661011761 NAD binding site [chemical binding]; other site 1249661011762 catalytic residues [active] 1249661011763 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1249661011764 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 1249661011765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661011766 homodimer interface [polypeptide binding]; other site 1249661011767 catalytic residue [active] 1249661011768 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1249661011769 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249661011770 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661011771 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 1249661011772 dimerization interface [polypeptide binding]; other site 1249661011773 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1249661011774 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1249661011775 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1249661011776 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661011777 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661011778 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1249661011779 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1249661011780 putative active site [active] 1249661011781 catalytic site [active] 1249661011782 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 1249661011783 putative active site [active] 1249661011784 catalytic site [active] 1249661011785 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1249661011786 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1249661011787 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249661011788 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1249661011789 NAD synthetase; Reviewed; Region: nadE; cl17435 1249661011790 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661011791 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661011792 hypothetical protein; Provisional; Region: PRK02399 1249661011793 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1249661011794 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 1249661011795 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1249661011796 putative hydrophobic ligand binding site [chemical binding]; other site 1249661011797 protein interface [polypeptide binding]; other site 1249661011798 gate; other site 1249661011799 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1249661011800 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1249661011801 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1249661011802 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661011803 Cytochrome c; Region: Cytochrom_C; pfam00034 1249661011804 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1249661011805 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1249661011806 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1249661011807 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 1249661011808 Cu(I) binding site [ion binding]; other site 1249661011809 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1249661011810 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 1249661011811 amidase catalytic site [active] 1249661011812 Zn binding residues [ion binding]; other site 1249661011813 substrate binding site [chemical binding]; other site 1249661011814 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1249661011815 YadA-like C-terminal region; Region: YadA; pfam03895 1249661011816 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1249661011817 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1249661011818 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661011819 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 1249661011820 active site 1249661011821 phosphorylation site [posttranslational modification] 1249661011822 intermolecular recognition site; other site 1249661011823 dimerization interface [polypeptide binding]; other site 1249661011824 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 1249661011825 DNA binding site [nucleotide binding] 1249661011826 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 1249661011827 dimer interface [polypeptide binding]; other site 1249661011828 phosphorylation site [posttranslational modification] 1249661011829 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 1249661011830 ATP binding site [chemical binding]; other site 1249661011831 G-X-G motif; other site 1249661011832 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1249661011833 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1249661011834 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1249661011835 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1249661011836 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1249661011837 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1249661011838 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1249661011839 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1249661011840 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 1249661011841 Walker A motif; other site 1249661011842 ATP binding site [chemical binding]; other site 1249661011843 Walker B motif; other site 1249661011844 arginine finger; other site 1249661011845 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 1249661011846 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1249661011847 Walker A motif; other site 1249661011848 ATP binding site [chemical binding]; other site 1249661011849 Walker B motif; other site 1249661011850 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1249661011851 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1249661011852 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661011853 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661011854 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 1249661011855 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661011856 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661011857 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661011858 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661011859 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661011860 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661011861 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661011862 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661011863 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661011864 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661011865 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661011866 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1249661011867 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1249661011868 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1249661011869 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1249661011870 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1249661011871 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1249661011872 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1249661011873 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1249661011874 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1249661011875 Bacterial Ig-like domain; Region: Big_5; pfam13205 1249661011876 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly...; Region: Peptidase_C19; cl02553 1249661011877 active site 1249661011878 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly...; Region: Peptidase_C19; cl02553 1249661011879 active site 1249661011880 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661011881 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661011882 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661011883 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 1249661011884 active site 1249661011885 phosphorylation site [posttranslational modification] 1249661011886 intermolecular recognition site; other site 1249661011887 dimerization interface [polypeptide binding]; other site 1249661011888 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 1249661011889 DNA binding residues [nucleotide binding] 1249661011890 dimerization interface [polypeptide binding]; other site 1249661011891 chaperone protein SicP; Provisional; Region: PRK15329 1249661011892 SicP binding; Region: SicP-binding; pfam09119 1249661011893 type III secretion protein BopE; Provisional; Region: PRK15278 1249661011894 SopE GEF domain; Region: SopE_GEF; pfam07487 1249661011895 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1249661011896 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 1249661011897 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249661011898 catalytic residue [active] 1249661011899 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1249661011900 type III effector protein IpaD/SipD/SspD; Region: SipD_IpaD_SspD; TIGR02553 1249661011901 H-NS histone family; Region: Histone_HNS; pfam00816 1249661011902 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1249661011903 Salmonella-Shigella invasin protein C (IpaC_SipC); Region: IpaC_SipC; cl10712 1249661011904 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 1249661011905 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1249661011906 Tetratricopeptide repeat; Region: TPR_3; pfam07720 1249661011907 Tetratricopeptide repeat; Region: TPR_3; pfam07720 1249661011908 type III secretion system protein SpaS; Validated; Region: PRK08156 1249661011909 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1249661011910 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1249661011911 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 1249661011912 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1249661011913 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1249661011914 ATP synthase SpaL; Validated; Region: PRK08149 1249661011915 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1249661011916 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 1249661011917 Walker A motif; other site 1249661011918 ATP binding site [chemical binding]; other site 1249661011919 Walker B motif; other site 1249661011920 Invasion protein B family; Region: Invas_SpaK; cl04129 1249661011921 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1249661011922 type III secretion system protein InvA; Provisional; Region: PRK15337 1249661011923 HrpJ-like domain; Region: HrpJ; cl15454 1249661011924 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661011925 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661011926 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1249661011927 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661011928 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661011929 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661011930 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 1249661011931 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 1249661011932 Type III secretion needle MxiH like; Region: MxiH; cl09641 1249661011933 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 1249661011934 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1249661011935 Bacterial type III secretion apparatus protein (OrgA_MxiK); Region: OrgA_MxiK; cl09716 1249661011936 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 1249661011937 DNA binding site [nucleotide binding] 1249661011938 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1249661011939 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1249661011940 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1249661011941 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1249661011942 active site 1249661011943 Zn binding site [ion binding]; other site 1249661011944 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1249661011945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661011946 putative substrate translocation pore; other site 1249661011947 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1249661011948 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 1249661011949 phosphate binding site [ion binding]; other site 1249661011950 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1249661011951 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 1249661011952 peptidase domain interface [polypeptide binding]; other site 1249661011953 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1249661011954 active site 1249661011955 catalytic triad [active] 1249661011956 calcium binding site [ion binding]; other site 1249661011957 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661011958 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661011959 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 1249661011960 putative DNA binding site [nucleotide binding]; other site 1249661011961 putative Zn2+ binding site [ion binding]; other site 1249661011962 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661011963 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1249661011964 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1249661011965 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 1249661011966 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661011967 AMP binding site [chemical binding]; other site 1249661011968 active site 1249661011969 CoA binding site [chemical binding]; other site 1249661011970 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1249661011971 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 1249661011972 DNA binding residues [nucleotide binding] 1249661011973 dimerization interface [polypeptide binding]; other site 1249661011974 Autoinducer synthetase; Region: Autoind_synth; cl17404 1249661011975 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 1249661011976 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1249661011977 putative active site [active] 1249661011978 putative FMN binding site [chemical binding]; other site 1249661011979 putative substrate binding site [chemical binding]; other site 1249661011980 putative catalytic residue [active] 1249661011981 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1249661011982 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 1249661011983 dimer interface [polypeptide binding]; other site 1249661011984 conserved gate region; other site 1249661011985 putative PBP binding loops; other site 1249661011986 ABC-ATPase subunit interface; other site 1249661011987 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1249661011988 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 1249661011989 Walker A/P-loop; other site 1249661011990 ATP binding site [chemical binding]; other site 1249661011991 Q-loop/lid; other site 1249661011992 ABC transporter signature motif; other site 1249661011993 Walker B; other site 1249661011994 D-loop; other site 1249661011995 H-loop/switch region; other site 1249661011996 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1249661011997 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 1249661011998 substrate binding pocket [chemical binding]; other site 1249661011999 membrane-bound complex binding site; other site 1249661012000 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1249661012001 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1249661012002 active site 1249661012003 iron coordination sites [ion binding]; other site 1249661012004 substrate binding pocket [chemical binding]; other site 1249661012005 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 1249661012006 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1249661012007 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1249661012008 DXD motif; other site 1249661012009 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 1249661012010 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 1249661012011 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1249661012012 endo-1,4-D-glucanase; Provisional; Region: PRK11097 1249661012013 cellulose synthase regulator protein; Provisional; Region: PRK11114 1249661012014 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 1249661012015 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1249661012016 non-specific DNA binding site [nucleotide binding]; other site 1249661012017 salt bridge; other site 1249661012018 sequence-specific DNA binding site [nucleotide binding]; other site 1249661012019 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1249661012020 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1249661012021 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1249661012022 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1249661012023 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1249661012024 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661012025 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661012026 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 1249661012027 dimerization interface [polypeptide binding]; other site 1249661012028 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1249661012029 agmatinase; Region: agmatinase; TIGR01230 1249661012030 oligomer interface [polypeptide binding]; other site 1249661012031 putative active site [active] 1249661012032 Mn binding site [ion binding]; other site 1249661012033 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661012034 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661012035 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661012036 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 1249661012037 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 1249661012038 PilM; Region: PilM; pfam07419 1249661012039 PilS N terminal; Region: PilS; pfam08805 1249661012040 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661012041 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661012042 Type II/IV secretion system protein; Region: T2SE; pfam00437 1249661012043 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 1249661012044 Walker A motif; other site 1249661012045 ATP binding site [chemical binding]; other site 1249661012046 Walker B motif; other site 1249661012047 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 1249661012048 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 1249661012049 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 1249661012050 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661012051 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1249661012052 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1249661012053 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 1249661012054 Walker A motif; other site 1249661012055 ATP binding site [chemical binding]; other site 1249661012056 Walker B motif; other site 1249661012057 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 1249661012058 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661012059 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 1249661012060 active site 1249661012061 phosphorylation site [posttranslational modification] 1249661012062 intermolecular recognition site; other site 1249661012063 dimerization interface [polypeptide binding]; other site 1249661012064 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 1249661012065 DNA binding site [nucleotide binding] 1249661012066 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661012067 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 1249661012068 Mg2+ binding site [ion binding]; other site 1249661012069 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 1249661012070 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661012071 Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]; Region: SFT1; COG5161 1249661012072 Tir chaperone protein (CesT) family; Region: CesT; cl08444 1249661012073 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 1249661012074 type III secretion system protein YscR; Provisional; Region: PRK12797 1249661012075 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1249661012076 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1249661012077 Type III secretion protein (HpaP); Region: HpaP; cl17849 1249661012078 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1249661012079 FHIPEP family; Region: FHIPEP; pfam00771 1249661012080 type III secretion system protein HrcU; Validated; Region: PRK09108 1249661012081 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1249661012082 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 1249661012083 Bacterial type III secretion protein (HrpB2); Region: HrpB2; pfam09487 1249661012084 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 1249661012085 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 1249661012086 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 1249661012087 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 1249661012088 type III secretion system protein HrpB; Validated; Region: PRK09098 1249661012089 Flagellar assembly protein FliH; Region: FliH; pfam02108 1249661012090 type III secretion system ATPase; Provisional; Region: PRK09099 1249661012091 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 1249661012092 Walker A motif; other site 1249661012093 ATP binding site [chemical binding]; other site 1249661012094 Walker B motif; other site 1249661012095 type III secretion protein HrpB7; Region: HrpB7; TIGR02559 1249661012096 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1249661012097 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 1249661012098 putative active site [active] 1249661012099 putative catalytic site [active] 1249661012100 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661012101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661012102 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 1249661012103 putative effector binding pocket; other site 1249661012104 dimerization interface [polypeptide binding]; other site 1249661012105 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661012106 putative substrate translocation pore; other site 1249661012107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1249661012108 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 1249661012109 ATP binding site [chemical binding]; other site 1249661012110 Mg2+ binding site [ion binding]; other site 1249661012111 G-X-G motif; other site 1249661012112 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1249661012113 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 1249661012114 active site 1249661012115 phosphorylation site [posttranslational modification] 1249661012116 intermolecular recognition site; other site 1249661012117 dimerization interface [polypeptide binding]; other site 1249661012118 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249661012119 Zn2+ binding site [ion binding]; other site 1249661012120 Mg2+ binding site [ion binding]; other site 1249661012121 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1249661012122 active site 1249661012123 nucleophile elbow; other site 1249661012124 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661012125 putative substrate translocation pore; other site 1249661012126 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1249661012127 Cytochrome P450; Region: p450; cl12078 1249661012128 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1249661012129 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 1249661012130 FMN-binding pocket [chemical binding]; other site 1249661012131 flavin binding motif; other site 1249661012132 phosphate binding motif [ion binding]; other site 1249661012133 beta-alpha-beta structure motif; other site 1249661012134 NAD binding pocket [chemical binding]; other site 1249661012135 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 1249661012136 catalytic loop [active] 1249661012137 iron binding site [ion binding]; other site 1249661012138 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1249661012139 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661012140 H+ Antiporter protein; Region: 2A0121; TIGR00900 1249661012141 putative substrate translocation pore; other site 1249661012142 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1249661012143 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1249661012144 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1249661012145 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1249661012146 Amidase; Region: Amidase; cl11426 1249661012147 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1249661012148 MULE transposase domain; Region: MULE; pfam10551 1249661012149 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1249661012150 Transposase domain (DUF772); Region: DUF772; pfam05598 1249661012151 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1249661012152 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1249661012153 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1249661012154 Autotransporter beta-domain; Region: Autotransporter; smart00869 1249661012155 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661012156 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 1249661012157 active site 1249661012158 phosphorylation site [posttranslational modification] 1249661012159 intermolecular recognition site; other site 1249661012160 dimerization interface [polypeptide binding]; other site 1249661012161 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 1249661012162 DNA binding residues [nucleotide binding] 1249661012163 dimerization interface [polypeptide binding]; other site 1249661012164 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661012165 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 1249661012166 active site 1249661012167 phosphorylation site [posttranslational modification] 1249661012168 intermolecular recognition site; other site 1249661012169 dimerization interface [polypeptide binding]; other site 1249661012170 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 1249661012171 DNA binding site [nucleotide binding] 1249661012172 CHASE2 domain; Region: CHASE2; pfam05226 1249661012173 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1249661012174 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 1249661012175 dimer interface [polypeptide binding]; other site 1249661012176 phosphorylation site [posttranslational modification] 1249661012177 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 1249661012178 ATP binding site [chemical binding]; other site 1249661012179 Mg2+ binding site [ion binding]; other site 1249661012180 G-X-G motif; other site 1249661012181 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1249661012182 ParB-like nuclease domain; Region: ParB; smart00470 1249661012183 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 1249661012184 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 1249661012185 Walker A motif; other site 1249661012186 ATP binding site [chemical binding]; other site 1249661012187 Walker B motif; other site 1249661012188 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1249661012189 FHIPEP family; Region: FHIPEP; pfam00771 1249661012190 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1249661012191 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1249661012192 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1249661012193 type III secretion system protein YscR; Provisional; Region: PRK12797 1249661012194 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1249661012195 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1249661012196 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1249661012197 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 1249661012198 binding surface 1249661012199 TPR motif; other site 1249661012200 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1249661012201 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1249661012202 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1249661012203 phosphopeptide binding site; other site 1249661012204 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 1249661012205 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249661012206 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661012207 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1249661012208 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1249661012209 G1 box; other site 1249661012210 putative GEF interaction site [polypeptide binding]; other site 1249661012211 GTP/Mg2+ binding site [chemical binding]; other site 1249661012212 Switch I region; other site 1249661012213 G2 box; other site 1249661012214 G3 box; other site 1249661012215 Switch II region; other site 1249661012216 G4 box; other site 1249661012217 G5 box; other site 1249661012218 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 1249661012219 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 1249661012220 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1249661012221 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1249661012222 selenocysteine synthase; Provisional; Region: PRK04311 1249661012223 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1249661012224 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1249661012225 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661012226 catalytic residue [active] 1249661012227 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1249661012228 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1249661012229 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 1249661012230 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1249661012231 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1249661012232 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1249661012233 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 1249661012234 molybdopterin cofactor binding site; other site 1249661012235 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1249661012236 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 1249661012237 molybdopterin cofactor binding site; other site 1249661012238 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 1249661012239 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1249661012240 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 1249661012241 putative active site [active] 1249661012242 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 1249661012243 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249661012244 substrate binding pocket [chemical binding]; other site 1249661012245 membrane-bound complex binding site; other site 1249661012246 hinge residues; other site 1249661012247 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 1249661012248 dimer interface [polypeptide binding]; other site 1249661012249 conserved gate region; other site 1249661012250 putative PBP binding loops; other site 1249661012251 ABC-ATPase subunit interface; other site 1249661012252 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1249661012253 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1249661012254 Walker A/P-loop; other site 1249661012255 ATP binding site [chemical binding]; other site 1249661012256 Q-loop/lid; other site 1249661012257 ABC transporter signature motif; other site 1249661012258 Walker B; other site 1249661012259 D-loop; other site 1249661012260 H-loop/switch region; other site 1249661012261 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1249661012262 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 1249661012263 active site 1249661012264 non-prolyl cis peptide bond; other site 1249661012265 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1249661012266 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1249661012267 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 1249661012268 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249661012269 substrate binding pocket [chemical binding]; other site 1249661012270 membrane-bound complex binding site; other site 1249661012271 hinge residues; other site 1249661012272 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249661012273 Coenzyme A binding pocket [chemical binding]; other site 1249661012274 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 1249661012275 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 1249661012276 putative active site [active] 1249661012277 Zn binding site [ion binding]; other site 1249661012278 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1249661012279 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661012280 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 1249661012281 trimer interface [polypeptide binding]; other site 1249661012282 eyelet of channel; other site 1249661012283 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1249661012284 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1249661012285 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1249661012286 active site 1249661012287 tetramer interface; other site 1249661012288 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1249661012289 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 1249661012290 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661012291 putative ADP-binding pocket [chemical binding]; other site 1249661012292 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 1249661012293 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661012294 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1249661012295 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1249661012296 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1249661012297 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1249661012298 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1249661012299 NADP-binding site; other site 1249661012300 homotetramer interface [polypeptide binding]; other site 1249661012301 substrate binding site [chemical binding]; other site 1249661012302 homodimer interface [polypeptide binding]; other site 1249661012303 active site 1249661012304 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661012305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661012306 NAD(P) binding site [chemical binding]; other site 1249661012307 active site 1249661012308 Cupin domain; Region: Cupin_2; cl17218 1249661012309 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1249661012310 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 1249661012311 homodimer interface [polypeptide binding]; other site 1249661012312 substrate-cofactor binding pocket; other site 1249661012313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661012314 catalytic residue [active] 1249661012315 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1249661012316 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 1249661012317 active site 1249661012318 tetramer interface [polypeptide binding]; other site 1249661012319 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661012320 active site 1249661012321 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1249661012322 Colicin V production protein; Region: Colicin_V; pfam02674 1249661012323 Sporulation related domain; Region: SPOR; cl10051 1249661012324 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1249661012325 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249661012326 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249661012327 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1249661012328 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1249661012329 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1249661012330 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 1249661012331 substrate binding site [chemical binding]; other site 1249661012332 active site 1249661012333 catalytic residues [active] 1249661012334 heterodimer interface [polypeptide binding]; other site 1249661012335 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1249661012336 DNA methylase; Region: N6_N4_Mtase; pfam01555 1249661012337 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1249661012338 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 1249661012339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661012340 catalytic residue [active] 1249661012341 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 1249661012342 active site 1249661012343 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1249661012344 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1249661012345 dimerization interface 3.5A [polypeptide binding]; other site 1249661012346 active site 1249661012347 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1249661012348 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1249661012349 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1249661012350 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1249661012351 tartrate dehydrogenase; Region: TTC; TIGR02089 1249661012352 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1249661012353 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 1249661012354 substrate binding site [chemical binding]; other site 1249661012355 Entericidin EcnA/B family; Region: Entericidin; cl02322 1249661012356 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1249661012357 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1249661012358 substrate binding site [chemical binding]; other site 1249661012359 ligand binding site [chemical binding]; other site 1249661012360 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661012361 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 1249661012362 putative DNA binding site [nucleotide binding]; other site 1249661012363 putative Zn2+ binding site [ion binding]; other site 1249661012364 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661012365 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 1249661012366 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 1249661012367 dimer interface [polypeptide binding]; other site 1249661012368 TPP-binding site [chemical binding]; other site 1249661012369 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1249661012370 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 1249661012371 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 1249661012372 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661012373 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1249661012374 Helix-turn-helix domain; Region: HTH_18; pfam12833 1249661012375 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 1249661012376 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1249661012377 dimer interface [polypeptide binding]; other site 1249661012378 active site 1249661012379 citrylCoA binding site [chemical binding]; other site 1249661012380 NADH binding [chemical binding]; other site 1249661012381 cationic pore residues; other site 1249661012382 oxalacetate/citrate binding site [chemical binding]; other site 1249661012383 coenzyme A binding site [chemical binding]; other site 1249661012384 catalytic triad [active] 1249661012385 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1249661012386 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1249661012387 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 1249661012388 L-aspartate oxidase; Provisional; Region: PRK06175 1249661012389 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1249661012390 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 1249661012391 SdhC subunit interface [polypeptide binding]; other site 1249661012392 proximal heme binding site [chemical binding]; other site 1249661012393 cardiolipin binding site; other site 1249661012394 Iron-sulfur protein interface; other site 1249661012395 proximal quinone binding site [chemical binding]; other site 1249661012396 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 1249661012397 Iron-sulfur protein interface; other site 1249661012398 proximal quinone binding site [chemical binding]; other site 1249661012399 SdhD (CybS) interface [polypeptide binding]; other site 1249661012400 proximal heme binding site [chemical binding]; other site 1249661012401 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1249661012402 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661012403 DNA-binding site [nucleotide binding]; DNA binding site 1249661012404 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1249661012405 malate dehydrogenase; Provisional; Region: PRK05442 1249661012406 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1249661012407 NAD(P) binding site [chemical binding]; other site 1249661012408 dimer interface [polypeptide binding]; other site 1249661012409 malate binding site [chemical binding]; other site 1249661012410 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1249661012411 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1249661012412 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1249661012413 aconitate hydratase; Provisional; Region: acnA; PRK12881 1249661012414 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1249661012415 substrate binding site [chemical binding]; other site 1249661012416 ligand binding site [chemical binding]; other site 1249661012417 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 1249661012418 substrate binding site [chemical binding]; other site 1249661012419 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661012420 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661012421 putative substrate translocation pore; other site 1249661012422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661012423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661012424 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 1249661012425 dimerization interface [polypeptide binding]; other site 1249661012426 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661012427 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1249661012428 Cytochrome c [Energy production and conversion]; Region: COG3258 1249661012429 Cytochrome c; Region: Cytochrom_C; pfam00034 1249661012430 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1249661012431 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 1249661012432 peptidase domain interface [polypeptide binding]; other site 1249661012433 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1249661012434 active site 1249661012435 catalytic triad [active] 1249661012436 calcium binding site [ion binding]; other site 1249661012437 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661012438 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 1249661012439 putative PBP binding loops; other site 1249661012440 dimer interface [polypeptide binding]; other site 1249661012441 ABC-ATPase subunit interface; other site 1249661012442 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 1249661012443 dimer interface [polypeptide binding]; other site 1249661012444 conserved gate region; other site 1249661012445 putative PBP binding loops; other site 1249661012446 ABC-ATPase subunit interface; other site 1249661012447 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1249661012448 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661012449 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249661012450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661012451 Walker A/P-loop; other site 1249661012452 ATP binding site [chemical binding]; other site 1249661012453 Q-loop/lid; other site 1249661012454 ABC transporter signature motif; other site 1249661012455 Walker B; other site 1249661012456 D-loop; other site 1249661012457 H-loop/switch region; other site 1249661012458 TOBE domain; Region: TOBE_2; pfam08402 1249661012459 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 1249661012460 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661012461 DNA-binding site [nucleotide binding]; DNA binding site 1249661012462 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 1249661012463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661012464 homodimer interface [polypeptide binding]; other site 1249661012465 catalytic residue [active] 1249661012466 lipase chaperone; Provisional; Region: PRK01294 1249661012467 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1249661012468 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1249661012469 Lipase (class 2); Region: Lipase_2; pfam01674 1249661012470 PGAP1-like protein; Region: PGAP1; pfam07819 1249661012471 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1249661012472 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 1249661012473 N-terminal plug; other site 1249661012474 ligand-binding site [chemical binding]; other site 1249661012475 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1249661012476 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1249661012477 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249661012478 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 1249661012479 E3 interaction surface; other site 1249661012480 lipoyl attachment site [posttranslational modification]; other site 1249661012481 Cupin domain; Region: Cupin_2; cl17218 1249661012482 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1249661012483 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249661012484 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1249661012485 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1249661012486 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1249661012487 NAD-dependent deacetylase; Provisional; Region: PRK05333 1249661012488 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 1249661012489 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1249661012490 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1249661012491 Winged helix-turn helix; Region: HTH_29; pfam13551 1249661012492 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1249661012493 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1249661012494 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 1249661012495 active site 1249661012496 ribulose/triose binding site [chemical binding]; other site 1249661012497 phosphate binding site [ion binding]; other site 1249661012498 substrate (anthranilate) binding pocket [chemical binding]; other site 1249661012499 product (indole) binding pocket [chemical binding]; other site 1249661012500 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1249661012501 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 1249661012502 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1249661012503 Cytochrome P450; Region: p450; cl12078 1249661012504 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661012505 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1249661012506 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661012507 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1249661012508 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 1249661012509 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 1249661012510 dimer interface [polypeptide binding]; other site 1249661012511 active site 1249661012512 acyl carrier protein; Validated; Region: PRK07117 1249661012513 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 1249661012514 substrate binding site [chemical binding]; other site 1249661012515 oxyanion hole (OAH) forming residues; other site 1249661012516 trimer interface [polypeptide binding]; other site 1249661012517 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1249661012518 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 1249661012519 dimer interface [polypeptide binding]; other site 1249661012520 active site 1249661012521 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661012522 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1249661012523 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1249661012524 putative NADP binding site [chemical binding]; other site 1249661012525 KR domain; Region: KR; pfam08659 1249661012526 active site 1249661012527 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012528 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012529 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012530 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 1249661012531 active site 1249661012532 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1249661012533 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012534 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 1249661012535 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012536 active site 1249661012537 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249661012538 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1249661012539 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1249661012540 putative NADP binding site [chemical binding]; other site 1249661012541 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661012542 active site 1249661012543 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012544 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 1249661012545 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012546 active site 1249661012547 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1249661012548 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661012549 putative NADP binding site [chemical binding]; other site 1249661012550 active site 1249661012551 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012552 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012553 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 1249661012554 active site 1249661012555 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1249661012556 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 1249661012557 trimer interface [polypeptide binding]; other site 1249661012558 oxyanion hole (OAH) forming residues; other site 1249661012559 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 1249661012560 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1249661012561 substrate binding site [chemical binding]; other site 1249661012562 oxyanion hole (OAH) forming residues; other site 1249661012563 trimer interface [polypeptide binding]; other site 1249661012564 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661012565 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012566 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 1249661012567 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012568 active site 1249661012569 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1249661012570 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012571 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 1249661012572 active site 1249661012573 Condensation domain; Region: Condensation; pfam00668 1249661012574 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661012575 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661012576 acyl-activating enzyme (AAE) consensus motif; other site 1249661012577 AMP binding site [chemical binding]; other site 1249661012578 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012579 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 1249661012580 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012581 active site 1249661012582 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1249661012583 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1249661012584 putative NADP binding site [chemical binding]; other site 1249661012585 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661012586 active site 1249661012587 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249661012588 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 1249661012589 S-adenosylmethionine binding site [chemical binding]; other site 1249661012590 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661012591 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661012592 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1249661012593 Enoylreductase; Region: PKS_ER; smart00829 1249661012594 NAD(P) binding site [chemical binding]; other site 1249661012595 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 1249661012596 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012597 active site 1249661012598 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1249661012599 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1249661012600 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1249661012601 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661012602 putative NADP binding site [chemical binding]; other site 1249661012603 active site 1249661012604 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661012605 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012606 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012607 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 1249661012608 active site 1249661012609 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1249661012610 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1249661012611 putative NADP binding site [chemical binding]; other site 1249661012612 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661012613 active site 1249661012614 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1249661012615 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012616 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1249661012617 active site 1249661012618 catalytic site [active] 1249661012619 short chain dehydrogenase; Provisional; Region: PRK12828 1249661012620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661012621 NAD(P) binding site [chemical binding]; other site 1249661012622 active site 1249661012623 FkbH-like domain; Region: FkbH; TIGR01686 1249661012624 HAD-superfamily phosphatase, subfamily IIIC; Region: HAD-SF-IIIC; TIGR01681 1249661012625 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012626 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 1249661012627 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012628 active site 1249661012629 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1249661012630 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661012631 putative NADP binding site [chemical binding]; other site 1249661012632 active site 1249661012633 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661012634 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 1249661012635 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661012636 active site 1249661012637 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661012638 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661012639 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1249661012640 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 1249661012641 active site 1249661012642 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661012643 Condensation domain; Region: Condensation; pfam00668 1249661012644 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661012645 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 1249661012646 DNA binding residues [nucleotide binding] 1249661012647 dimerization interface [polypeptide binding]; other site 1249661012648 peroxiredoxin; Region: AhpC; TIGR03137 1249661012649 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 1249661012650 dimer interface [polypeptide binding]; other site 1249661012651 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1249661012652 catalytic triad [active] 1249661012653 peroxidatic and resolving cysteines [active] 1249661012654 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1249661012655 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 1249661012656 catalytic residue [active] 1249661012657 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 1249661012658 catalytic residues [active] 1249661012659 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661012660 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661012661 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661012662 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661012663 MAPEG family; Region: MAPEG; cl09190 1249661012664 acyl-CoA synthetase; Validated; Region: PRK05850 1249661012665 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1249661012666 acyl-activating enzyme (AAE) consensus motif; other site 1249661012667 active site 1249661012668 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661012669 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1249661012670 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1249661012671 active site 1249661012672 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661012673 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1249661012674 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 1249661012675 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 1249661012676 dimer interface [polypeptide binding]; other site 1249661012677 active site 1249661012678 CoA binding pocket [chemical binding]; other site 1249661012679 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1249661012680 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1249661012681 active site 1249661012682 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1249661012683 active site 1249661012684 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661012685 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1249661012686 acyl-activating enzyme (AAE) consensus motif; other site 1249661012687 AMP binding site [chemical binding]; other site 1249661012688 active site 1249661012689 CoA binding site [chemical binding]; other site 1249661012690 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1249661012691 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1249661012692 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1249661012693 active site 1249661012694 dimer interface [polypeptide binding]; other site 1249661012695 effector binding site; other site 1249661012696 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1249661012697 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1249661012698 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1249661012699 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 1249661012700 dimer interface [polypeptide binding]; other site 1249661012701 conserved gate region; other site 1249661012702 putative PBP binding loops; other site 1249661012703 ABC-ATPase subunit interface; other site 1249661012704 NMT1-like family; Region: NMT1_2; pfam13379 1249661012705 NMT1/THI5 like; Region: NMT1; pfam09084 1249661012706 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1249661012707 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1249661012708 Walker A/P-loop; other site 1249661012709 ATP binding site [chemical binding]; other site 1249661012710 Q-loop/lid; other site 1249661012711 ABC transporter signature motif; other site 1249661012712 Walker B; other site 1249661012713 D-loop; other site 1249661012714 H-loop/switch region; other site 1249661012715 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661012716 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661012717 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1249661012718 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1249661012719 Cupin; Region: Cupin_6; pfam12852 1249661012720 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661012721 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661012722 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1249661012723 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 1249661012724 ring oligomerisation interface [polypeptide binding]; other site 1249661012725 ATP/Mg binding site [chemical binding]; other site 1249661012726 stacking interactions; other site 1249661012727 hinge regions; other site 1249661012728 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 1249661012729 oligomerisation interface [polypeptide binding]; other site 1249661012730 mobile loop; other site 1249661012731 roof hairpin; other site 1249661012732 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1249661012733 oligomer interface [polypeptide binding]; other site 1249661012734 agmatinase; Region: agmatinase; TIGR01230 1249661012735 putative active site [active] 1249661012736 Mn binding site [ion binding]; other site 1249661012737 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1249661012738 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1249661012739 NAD(P) binding site [chemical binding]; other site 1249661012740 catalytic residues [active] 1249661012741 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1249661012742 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 1249661012743 non-specific DNA binding site [nucleotide binding]; other site 1249661012744 salt bridge; other site 1249661012745 sequence-specific DNA binding site [nucleotide binding]; other site 1249661012746 Cupin domain; Region: Cupin_2; pfam07883 1249661012747 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1249661012748 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1249661012749 catalytic triad [active] 1249661012750 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1249661012751 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1249661012752 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 1249661012753 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 1249661012754 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661012755 catalytic residue [active] 1249661012756 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1249661012757 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661012758 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1249661012759 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661012760 Walker A/P-loop; other site 1249661012761 ATP binding site [chemical binding]; other site 1249661012762 Q-loop/lid; other site 1249661012763 ABC transporter signature motif; other site 1249661012764 Walker B; other site 1249661012765 D-loop; other site 1249661012766 H-loop/switch region; other site 1249661012767 TOBE domain; Region: TOBE_2; pfam08402 1249661012768 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 1249661012769 dimer interface [polypeptide binding]; other site 1249661012770 conserved gate region; other site 1249661012771 putative PBP binding loops; other site 1249661012772 ABC-ATPase subunit interface; other site 1249661012773 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661012774 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 1249661012775 dimer interface [polypeptide binding]; other site 1249661012776 conserved gate region; other site 1249661012777 putative PBP binding loops; other site 1249661012778 ABC-ATPase subunit interface; other site 1249661012779 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 1249661012780 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1249661012781 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1249661012782 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1249661012783 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1249661012784 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1249661012785 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1249661012786 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 1249661012787 dimerization interface [polypeptide binding]; other site 1249661012788 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1249661012789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661012790 dimer interface [polypeptide binding]; other site 1249661012791 putative CheW interface [polypeptide binding]; other site 1249661012792 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 1249661012793 hypothetical protein; Provisional; Region: PRK08609 1249661012794 active site 1249661012795 primer binding site [nucleotide binding]; other site 1249661012796 NTP binding site [chemical binding]; other site 1249661012797 metal binding triad [ion binding]; metal-binding site 1249661012798 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 1249661012799 active site 1249661012800 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1249661012801 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1249661012802 Putative amidotransferase; Region: DUF4066; pfam13278 1249661012803 conserved cys residue [active] 1249661012804 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 1249661012805 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661012806 DNA-binding site [nucleotide binding]; DNA binding site 1249661012807 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 1249661012808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661012809 homodimer interface [polypeptide binding]; other site 1249661012810 catalytic residue [active] 1249661012811 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1249661012812 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1249661012813 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1249661012814 NAD binding site [chemical binding]; other site 1249661012815 active site 1249661012816 Nuclease-related domain; Region: NERD; pfam08378 1249661012817 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 1249661012818 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 1249661012819 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1249661012820 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 1249661012821 catalytic residues [active] 1249661012822 catalytic nucleophile [active] 1249661012823 Presynaptic Site I dimer interface [polypeptide binding]; other site 1249661012824 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1249661012825 Synaptic Flat tetramer interface [polypeptide binding]; other site 1249661012826 Synaptic Site I dimer interface [polypeptide binding]; other site 1249661012827 DNA binding site [nucleotide binding] 1249661012828 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 1249661012829 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 1249661012830 active site 1249661012831 Int/Topo IB signature motif; other site 1249661012832 DNA binding site [nucleotide binding] 1249661012833 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1249661012834 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 1249661012835 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1249661012836 acetyl-CoA synthetase; Provisional; Region: PRK00174 1249661012837 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1249661012838 active site 1249661012839 CoA binding site [chemical binding]; other site 1249661012840 acyl-activating enzyme (AAE) consensus motif; other site 1249661012841 AMP binding site [chemical binding]; other site 1249661012842 acetate binding site [chemical binding]; other site 1249661012843 EamA-like transporter family; Region: EamA; pfam00892 1249661012844 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1249661012845 EamA-like transporter family; Region: EamA; pfam00892 1249661012846 hypothetical protein; Provisional; Region: PRK05208 1249661012847 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1249661012848 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1249661012849 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1249661012850 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1249661012851 heme binding site [chemical binding]; other site 1249661012852 ferroxidase pore; other site 1249661012853 ferroxidase diiron center [ion binding]; other site 1249661012854 glutamate racemase; Provisional; Region: PRK00865 1249661012855 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1249661012856 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1249661012857 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1249661012858 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1249661012859 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249661012860 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1249661012861 LysR family transcriptional regulator; Provisional; Region: PRK14997 1249661012862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661012863 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 1249661012864 putative effector binding pocket; other site 1249661012865 putative dimerization interface [polypeptide binding]; other site 1249661012866 Pirin-related protein [General function prediction only]; Region: COG1741 1249661012867 Pirin; Region: Pirin; pfam02678 1249661012868 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1249661012869 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 1249661012870 putative hydrophobic ligand binding site [chemical binding]; other site 1249661012871 Hemin uptake protein hemP; Region: hemP; pfam10636 1249661012872 Domain of unknown function (DUF336); Region: DUF336; cl01249 1249661012873 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1249661012874 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1249661012875 Iron permease FTR1 family; Region: FTR1; cl00475 1249661012876 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1249661012877 Fe2+ transport protein; Region: Iron_transport; pfam10634 1249661012878 excinuclease ABC subunit B; Provisional; Region: PRK05298 1249661012879 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 1249661012880 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 1249661012881 ATP-binding site [chemical binding]; other site 1249661012882 ATP binding site [chemical binding]; other site 1249661012883 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 1249661012884 nucleotide binding region [chemical binding]; other site 1249661012885 ATP-binding site [chemical binding]; other site 1249661012886 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1249661012887 UvrB/uvrC motif; Region: UVR; pfam02151 1249661012888 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1249661012889 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 1249661012890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661012891 homodimer interface [polypeptide binding]; other site 1249661012892 catalytic residue [active] 1249661012893 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 1249661012894 classical (c) SDRs; Region: SDR_c; cd05233 1249661012895 NAD(P) binding site [chemical binding]; other site 1249661012896 active site 1249661012897 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 1249661012898 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 1249661012899 active site 1249661012900 catalytic tetrad [active] 1249661012901 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1249661012902 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1249661012903 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661012904 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 1249661012905 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1249661012906 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1249661012907 DNA binding residues [nucleotide binding] 1249661012908 dimer interface [polypeptide binding]; other site 1249661012909 copper binding site [ion binding]; other site 1249661012910 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 1249661012911 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 1249661012912 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 1249661012913 NAD(P) binding site [chemical binding]; other site 1249661012914 catalytic residues [active] 1249661012915 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1249661012916 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1249661012917 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 1249661012918 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 1249661012919 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 1249661012920 dimer interface [polypeptide binding]; other site 1249661012921 conserved gate region; other site 1249661012922 putative PBP binding loops; other site 1249661012923 ABC-ATPase subunit interface; other site 1249661012924 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 1249661012925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661012926 Walker A/P-loop; other site 1249661012927 ATP binding site [chemical binding]; other site 1249661012928 Q-loop/lid; other site 1249661012929 ABC transporter signature motif; other site 1249661012930 Walker B; other site 1249661012931 D-loop; other site 1249661012932 H-loop/switch region; other site 1249661012933 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 1249661012934 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249661012935 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1249661012936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661012937 catalytic residue [active] 1249661012938 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661012939 D-galactonate transporter; Region: 2A0114; TIGR00893 1249661012940 putative substrate translocation pore; other site 1249661012941 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661012942 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1249661012943 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1249661012944 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1249661012945 shikimate binding site; other site 1249661012946 NAD(P) binding site [chemical binding]; other site 1249661012947 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 1249661012948 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1249661012949 active site 1249661012950 trimer interface [polypeptide binding]; other site 1249661012951 dimer interface [polypeptide binding]; other site 1249661012952 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1249661012953 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1249661012954 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1249661012955 dimer interface [polypeptide binding]; other site 1249661012956 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1249661012957 active site 1249661012958 Fe binding site [ion binding]; other site 1249661012959 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1249661012960 L-lactate permease; Region: Lactate_perm; cl00701 1249661012961 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 1249661012962 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 1249661012963 PAS fold; Region: PAS_4; pfam08448 1249661012964 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661012965 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661012966 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1249661012967 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1249661012968 FAD dependent oxidoreductase; Region: DAO; pfam01266 1249661012969 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1249661012970 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1249661012971 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 1249661012972 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1249661012973 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1249661012974 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1249661012975 inhibitor site; inhibition site 1249661012976 active site 1249661012977 dimer interface [polypeptide binding]; other site 1249661012978 catalytic residue [active] 1249661012979 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1249661012980 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1249661012981 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1249661012982 dimer interface [polypeptide binding]; other site 1249661012983 NADP binding site [chemical binding]; other site 1249661012984 catalytic residues [active] 1249661012985 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1249661012986 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249661012987 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661012988 putative substrate translocation pore; other site 1249661012989 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661012990 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661012991 putative substrate translocation pore; other site 1249661012992 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661012993 Predicted membrane protein [Function unknown]; Region: COG2259 1249661012994 L-lactate permease; Region: Lactate_perm; cl00701 1249661012995 glycolate transporter; Provisional; Region: PRK09695 1249661012996 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 1249661012997 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1249661012998 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1249661012999 4Fe-4S binding domain; Region: Fer4; pfam00037 1249661013000 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1249661013001 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1249661013002 Cysteine-rich domain; Region: CCG; pfam02754 1249661013003 Cysteine-rich domain; Region: CCG; pfam02754 1249661013004 transcriptional regulator NanR; Provisional; Region: PRK03837 1249661013005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661013006 DNA-binding site [nucleotide binding]; DNA binding site 1249661013007 FCD domain; Region: FCD; pfam07729 1249661013008 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1249661013009 Flavin binding site [chemical binding]; other site 1249661013010 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 1249661013011 dimer interface [polypeptide binding]; other site 1249661013012 conserved gate region; other site 1249661013013 ABC-ATPase subunit interface; other site 1249661013014 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1249661013015 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1249661013016 Walker A/P-loop; other site 1249661013017 ATP binding site [chemical binding]; other site 1249661013018 Q-loop/lid; other site 1249661013019 ABC transporter signature motif; other site 1249661013020 Walker B; other site 1249661013021 D-loop; other site 1249661013022 H-loop/switch region; other site 1249661013023 NIL domain; Region: NIL; cl09633 1249661013024 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1249661013025 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 1249661013026 active site 1249661013027 non-prolyl cis peptide bond; other site 1249661013028 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1249661013029 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1249661013030 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1249661013031 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 1249661013032 DNA binding residues [nucleotide binding] 1249661013033 dimerization interface [polypeptide binding]; other site 1249661013034 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1249661013035 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661013036 AMP-binding enzyme; Region: AMP-binding; pfam00501 1249661013037 acyl-activating enzyme (AAE) consensus motif; other site 1249661013038 AMP binding site [chemical binding]; other site 1249661013039 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661013040 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1249661013041 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 1249661013042 active site 1249661013043 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661013044 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1249661013045 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1249661013046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661013047 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661013048 NAD(P) binding site [chemical binding]; other site 1249661013049 active site 1249661013050 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661013051 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 1249661013052 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 1249661013053 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 1249661013054 hypothetical protein; Provisional; Region: PRK07036 1249661013055 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 1249661013056 inhibitor-cofactor binding pocket; inhibition site 1249661013057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661013058 catalytic residue [active] 1249661013059 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1249661013060 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1249661013061 tetrameric interface [polypeptide binding]; other site 1249661013062 NAD binding site [chemical binding]; other site 1249661013063 catalytic residues [active] 1249661013064 substrate binding site [chemical binding]; other site 1249661013065 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661013066 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1249661013067 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 1249661013068 active site 1249661013069 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1249661013070 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1249661013071 putative NADP binding site [chemical binding]; other site 1249661013072 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661013073 active site 1249661013074 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249661013075 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 1249661013076 S-adenosylmethionine binding site [chemical binding]; other site 1249661013077 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661013078 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661013079 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 1249661013080 active site 1249661013081 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661013082 Condensation domain; Region: Condensation; pfam00668 1249661013083 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661013084 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661013085 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661013086 thioester reductase domain; Region: Thioester-redct; TIGR01746 1249661013087 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 1249661013088 putative NAD(P) binding site [chemical binding]; other site 1249661013089 active site 1249661013090 putative substrate binding site [chemical binding]; other site 1249661013091 Ketol-acid reductoisomerase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvC; COG0059 1249661013092 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1249661013093 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1249661013094 FkbH-like domain; Region: FkbH; TIGR01686 1249661013095 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1249661013096 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1249661013097 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249661013098 catalytic residue [active] 1249661013099 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1249661013100 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1249661013101 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661013102 acyl-activating enzyme (AAE) consensus motif; other site 1249661013103 AMP binding site [chemical binding]; other site 1249661013104 active site 1249661013105 CoA binding site [chemical binding]; other site 1249661013106 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1249661013107 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661013108 acyl-CoA synthetase; Validated; Region: PRK05850 1249661013109 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1249661013110 acyl-activating enzyme (AAE) consensus motif; other site 1249661013111 active site 1249661013112 Membrane transport protein; Region: Mem_trans; cl09117 1249661013113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661013114 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1249661013115 Coenzyme A binding pocket [chemical binding]; other site 1249661013116 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1249661013117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661013118 DNA-binding site [nucleotide binding]; DNA binding site 1249661013119 FCD domain; Region: FCD; pfam07729 1249661013120 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1249661013121 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1249661013122 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661013123 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1249661013124 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1249661013125 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661013126 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661013127 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 1249661013128 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1249661013129 substrate binding pocket [chemical binding]; other site 1249661013130 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661013131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013132 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 1249661013133 putative effector binding pocket; other site 1249661013134 putative dimerization interface [polypeptide binding]; other site 1249661013135 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1249661013136 Purine nucleoside permease (NUP); Region: NUP; pfam06516 1249661013137 selenophosphate synthetase; Provisional; Region: PRK00943 1249661013138 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 1249661013139 dimerization interface [polypeptide binding]; other site 1249661013140 putative ATP binding site [chemical binding]; other site 1249661013141 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1249661013142 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 1249661013143 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661013144 DNA-binding site [nucleotide binding]; DNA binding site 1249661013145 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 1249661013146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661013147 homodimer interface [polypeptide binding]; other site 1249661013148 catalytic residue [active] 1249661013149 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1249661013150 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 1249661013151 inhibitor-cofactor binding pocket; inhibition site 1249661013152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661013153 catalytic residue [active] 1249661013154 succinic semialdehyde dehydrogenase; Region: PLN02278 1249661013155 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1249661013156 tetramerization interface [polypeptide binding]; other site 1249661013157 NAD(P) binding site [chemical binding]; other site 1249661013158 catalytic residues [active] 1249661013159 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 1249661013160 PAS domain; Region: PAS_9; pfam13426 1249661013161 putative active site [active] 1249661013162 heme pocket [chemical binding]; other site 1249661013163 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661013164 dimer interface [polypeptide binding]; other site 1249661013165 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1249661013166 putative CheW interface [polypeptide binding]; other site 1249661013167 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1249661013168 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 1249661013169 dimer interface [polypeptide binding]; other site 1249661013170 active site 1249661013171 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1249661013172 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249661013173 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661013174 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1249661013175 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661013176 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1249661013177 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013178 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1249661013179 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1249661013180 metal binding site [ion binding]; metal-binding site 1249661013181 putative dimer interface [polypeptide binding]; other site 1249661013182 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 1249661013183 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661013184 dimerization interface [polypeptide binding]; other site 1249661013185 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 1249661013186 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249661013187 substrate binding pocket [chemical binding]; other site 1249661013188 membrane-bound complex binding site; other site 1249661013189 hinge residues; other site 1249661013190 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1249661013191 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1249661013192 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1249661013193 active site 1249661013194 Zn binding site [ion binding]; other site 1249661013195 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1249661013196 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1249661013197 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661013198 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 1249661013199 trimer interface [polypeptide binding]; other site 1249661013200 eyelet of channel; other site 1249661013201 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 1249661013202 DAK2 domain; Region: Dak2; cl03685 1249661013203 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1249661013204 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1249661013205 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1249661013206 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 1249661013207 putative NAD(P) binding site [chemical binding]; other site 1249661013208 catalytic Zn binding site [ion binding]; other site 1249661013209 structural Zn binding site [ion binding]; other site 1249661013210 short chain dehydrogenase; Provisional; Region: PRK06841 1249661013211 classical (c) SDRs; Region: SDR_c; cd05233 1249661013212 NAD(P) binding site [chemical binding]; other site 1249661013213 active site 1249661013214 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1249661013215 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249661013216 putative ligand binding site [chemical binding]; other site 1249661013217 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661013218 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 1249661013219 TM-ABC transporter signature motif; other site 1249661013220 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249661013221 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661013222 Walker A/P-loop; other site 1249661013223 ATP binding site [chemical binding]; other site 1249661013224 Q-loop/lid; other site 1249661013225 ABC transporter signature motif; other site 1249661013226 Walker B; other site 1249661013227 D-loop; other site 1249661013228 H-loop/switch region; other site 1249661013229 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661013230 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1249661013231 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1249661013232 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1249661013233 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1249661013234 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661013235 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 1249661013236 trimer interface [polypeptide binding]; other site 1249661013237 eyelet of channel; other site 1249661013238 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1249661013239 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 1249661013240 dimer interface [polypeptide binding]; other site 1249661013241 conserved gate region; other site 1249661013242 putative PBP binding loops; other site 1249661013243 ABC-ATPase subunit interface; other site 1249661013244 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1249661013245 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249661013246 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249661013247 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1249661013248 Walker A/P-loop; other site 1249661013249 ATP binding site [chemical binding]; other site 1249661013250 Q-loop/lid; other site 1249661013251 ABC transporter signature motif; other site 1249661013252 Walker B; other site 1249661013253 D-loop; other site 1249661013254 H-loop/switch region; other site 1249661013255 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661013256 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 1249661013257 dimer interface [polypeptide binding]; other site 1249661013258 conserved gate region; other site 1249661013259 putative PBP binding loops; other site 1249661013260 ABC-ATPase subunit interface; other site 1249661013261 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249661013262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013263 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 1249661013264 dimerization interface [polypeptide binding]; other site 1249661013265 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1249661013266 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 1249661013267 N-terminal plug; other site 1249661013268 ligand-binding site [chemical binding]; other site 1249661013269 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1249661013270 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1249661013271 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1249661013272 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249661013273 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1249661013274 intersubunit interface [polypeptide binding]; other site 1249661013275 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 1249661013276 putative PBP binding regions; other site 1249661013277 ABC-ATPase subunit interface; other site 1249661013278 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 1249661013279 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249661013280 Walker A/P-loop; other site 1249661013281 ATP binding site [chemical binding]; other site 1249661013282 Q-loop/lid; other site 1249661013283 ABC transporter signature motif; other site 1249661013284 Walker B; other site 1249661013285 D-loop; other site 1249661013286 H-loop/switch region; other site 1249661013287 Predicted membrane protein [Function unknown]; Region: COG2860 1249661013288 UPF0126 domain; Region: UPF0126; pfam03458 1249661013289 UPF0126 domain; Region: UPF0126; pfam03458 1249661013290 Transglycosylase; Region: Transgly; pfam00912 1249661013291 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1249661013292 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249661013293 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 1249661013294 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013295 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 1249661013296 putative dimerization interface [polypeptide binding]; other site 1249661013297 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 1249661013298 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 1249661013299 tetramer interface [polypeptide binding]; other site 1249661013300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661013301 catalytic residue [active] 1249661013302 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1249661013303 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1249661013304 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1249661013305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1249661013306 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249661013307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013308 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 1249661013309 dimerization interface [polypeptide binding]; other site 1249661013310 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1249661013311 active site lid residues [active] 1249661013312 substrate binding pocket [chemical binding]; other site 1249661013313 catalytic residues [active] 1249661013314 substrate-Mg2+ binding site; other site 1249661013315 aspartate-rich region 1; other site 1249661013316 aspartate-rich region 2; other site 1249661013317 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661013318 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 1249661013319 active site 1249661013320 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1249661013321 Sulfatase; Region: Sulfatase; cl17466 1249661013322 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1249661013323 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1249661013324 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1249661013325 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1249661013326 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1249661013327 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1249661013328 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1249661013329 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 1249661013330 metal-binding site [ion binding] 1249661013331 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 1249661013332 metal-binding site [ion binding] 1249661013333 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 1249661013334 metal-binding site [ion binding] 1249661013335 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1249661013336 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1249661013337 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 1249661013338 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1249661013339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661013340 Coenzyme A binding pocket [chemical binding]; other site 1249661013341 MgtC family; Region: MgtC; pfam02308 1249661013342 dimerization interface [polypeptide binding]; other site 1249661013343 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 1249661013344 putative active cleft [active] 1249661013345 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1249661013346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013347 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 1249661013348 dimerization interface [polypeptide binding]; other site 1249661013349 substrate binding pocket [chemical binding]; other site 1249661013350 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661013351 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013352 putative substrate translocation pore; other site 1249661013353 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1249661013354 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1249661013355 dimer interface [polypeptide binding]; other site 1249661013356 ligand binding site [chemical binding]; other site 1249661013357 HAMP domain; Region: HAMP; pfam00672 1249661013358 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661013359 dimer interface [polypeptide binding]; other site 1249661013360 putative CheW interface [polypeptide binding]; other site 1249661013361 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 1249661013362 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 1249661013363 FeS/SAM binding site; other site 1249661013364 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1249661013365 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 1249661013366 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 1249661013367 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 1249661013368 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 1249661013369 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 1249661013370 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 1249661013371 CoenzymeA binding site [chemical binding]; other site 1249661013372 subunit interaction site [polypeptide binding]; other site 1249661013373 PHB binding site; other site 1249661013374 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1249661013375 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1249661013376 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1249661013377 substrate binding site [chemical binding]; other site 1249661013378 ligand binding site [chemical binding]; other site 1249661013379 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 1249661013380 substrate binding site [chemical binding]; other site 1249661013381 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1249661013382 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 1249661013383 dimer interface [polypeptide binding]; other site 1249661013384 active site 1249661013385 citrylCoA binding site [chemical binding]; other site 1249661013386 oxalacetate/citrate binding site [chemical binding]; other site 1249661013387 coenzyme A binding site [chemical binding]; other site 1249661013388 catalytic triad [active] 1249661013389 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1249661013390 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 1249661013391 tetramer interface [polypeptide binding]; other site 1249661013392 active site 1249661013393 Mg2+/Mn2+ binding site [ion binding]; other site 1249661013394 Propionate catabolism activator; Region: PrpR_N; pfam06506 1249661013395 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1249661013396 PAS domain; Region: PAS; smart00091 1249661013397 putative active site [active] 1249661013398 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 1249661013399 Walker A motif; other site 1249661013400 ATP binding site [chemical binding]; other site 1249661013401 Walker B motif; other site 1249661013402 arginine finger; other site 1249661013403 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 1249661013404 dimerization interface [polypeptide binding]; other site 1249661013405 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661013406 dimer interface [polypeptide binding]; other site 1249661013407 putative CheW interface [polypeptide binding]; other site 1249661013408 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 1249661013409 S-adenosylmethionine binding site [chemical binding]; other site 1249661013410 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1249661013411 TAP-like protein; Region: Abhydrolase_4; pfam08386 1249661013412 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1249661013413 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249661013414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661013415 Walker A/P-loop; other site 1249661013416 ATP binding site [chemical binding]; other site 1249661013417 Q-loop/lid; other site 1249661013418 ABC transporter signature motif; other site 1249661013419 Walker B; other site 1249661013420 D-loop; other site 1249661013421 H-loop/switch region; other site 1249661013422 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1249661013423 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249661013424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661013425 Walker A/P-loop; other site 1249661013426 ATP binding site [chemical binding]; other site 1249661013427 Q-loop/lid; other site 1249661013428 ABC transporter signature motif; other site 1249661013429 Walker B; other site 1249661013430 D-loop; other site 1249661013431 H-loop/switch region; other site 1249661013432 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1249661013433 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 1249661013434 N-terminal plug; other site 1249661013435 ligand-binding site [chemical binding]; other site 1249661013436 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661013437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661013438 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1249661013439 Condensation domain; Region: Condensation; pfam00668 1249661013440 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661013441 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1249661013442 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1249661013443 acyl-activating enzyme (AAE) consensus motif; other site 1249661013444 AMP binding site [chemical binding]; other site 1249661013445 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1249661013446 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661013447 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661013448 Condensation domain; Region: Condensation; pfam00668 1249661013449 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661013450 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1249661013451 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1249661013452 muropeptide transporter; Validated; Region: ampG; cl17669 1249661013453 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 1249661013454 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661013455 active site 1249661013456 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661013457 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1249661013458 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 1249661013459 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 1249661013460 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661013461 NADP binding site [chemical binding]; other site 1249661013462 active site 1249661013463 Condensation domain; Region: Condensation; pfam00668 1249661013464 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661013465 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1249661013466 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1249661013467 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661013468 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1249661013469 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 1249661013470 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249661013471 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1249661013472 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1249661013473 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1249661013474 acyl-activating enzyme (AAE) consensus motif; other site 1249661013475 active site 1249661013476 AMP binding site [chemical binding]; other site 1249661013477 substrate binding site [chemical binding]; other site 1249661013478 salicylate synthase; Region: salicyl_syn; TIGR03494 1249661013479 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1249661013480 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661013481 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 1249661013482 dimer interface [polypeptide binding]; other site 1249661013483 putative metal binding site [ion binding]; other site 1249661013484 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1249661013485 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 1249661013486 homodimer interface [polypeptide binding]; other site 1249661013487 substrate-cofactor binding pocket; other site 1249661013488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661013489 catalytic residue [active] 1249661013490 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 1249661013491 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1249661013492 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661013493 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1249661013494 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661013495 indole acetimide hydrolase; Validated; Region: PRK07488 1249661013496 Amidase; Region: Amidase; pfam01425 1249661013497 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1249661013498 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1249661013499 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1249661013500 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661013501 Coenzyme A binding pocket [chemical binding]; other site 1249661013502 H-NS histone family; Region: Histone_HNS; pfam00816 1249661013503 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1249661013504 PAS fold; Region: PAS_4; pfam08448 1249661013505 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1249661013506 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 1249661013507 Walker B motif; other site 1249661013508 arginine finger; other site 1249661013509 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661013510 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1249661013511 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1249661013512 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1249661013513 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1249661013514 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 1249661013515 active site residue [active] 1249661013516 outer membrane porin, OprD family; Region: OprD; pfam03573 1249661013517 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1249661013518 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661013519 Walker A/P-loop; other site 1249661013520 ATP binding site [chemical binding]; other site 1249661013521 Q-loop/lid; other site 1249661013522 ABC transporter signature motif; other site 1249661013523 Walker B; other site 1249661013524 D-loop; other site 1249661013525 H-loop/switch region; other site 1249661013526 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661013527 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1249661013528 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661013529 Walker A/P-loop; other site 1249661013530 ATP binding site [chemical binding]; other site 1249661013531 Q-loop/lid; other site 1249661013532 ABC transporter signature motif; other site 1249661013533 Walker B; other site 1249661013534 D-loop; other site 1249661013535 H-loop/switch region; other site 1249661013536 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661013537 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1249661013538 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 1249661013539 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1249661013540 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 1249661013541 dimer interface [polypeptide binding]; other site 1249661013542 conserved gate region; other site 1249661013543 putative PBP binding loops; other site 1249661013544 ABC-ATPase subunit interface; other site 1249661013545 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1249661013546 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1249661013547 peptide binding site [polypeptide binding]; other site 1249661013548 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1249661013549 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 1249661013550 non-specific DNA binding site [nucleotide binding]; other site 1249661013551 salt bridge; other site 1249661013552 sequence-specific DNA binding site [nucleotide binding]; other site 1249661013553 Cupin domain; Region: Cupin_2; pfam07883 1249661013554 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 1249661013555 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013556 putative substrate translocation pore; other site 1249661013557 POT family; Region: PTR2; cl17359 1249661013558 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1249661013559 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013560 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 1249661013561 substrate binding pocket [chemical binding]; other site 1249661013562 dimerization interface [polypeptide binding]; other site 1249661013563 Putative cyclase; Region: Cyclase; cl00814 1249661013564 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1249661013565 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1249661013566 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661013567 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661013568 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1249661013569 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1249661013570 NAD(P) binding site [chemical binding]; other site 1249661013571 Isochorismatase family; Region: Isochorismatase; pfam00857 1249661013572 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 1249661013573 catalytic triad [active] 1249661013574 conserved cis-peptide bond; other site 1249661013575 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013576 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661013577 putative substrate translocation pore; other site 1249661013578 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013579 benzoate transport; Region: 2A0115; TIGR00895 1249661013580 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013581 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013582 putative substrate translocation pore; other site 1249661013583 Putative cyclase; Region: Cyclase; cl00814 1249661013584 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1249661013585 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1249661013586 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661013587 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1249661013588 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661013589 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1249661013590 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661013591 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 1249661013592 trimer interface [polypeptide binding]; other site 1249661013593 eyelet of channel; other site 1249661013594 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1249661013595 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1249661013596 OpgC protein; Region: OpgC_C; pfam10129 1249661013597 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1249661013598 acylphosphatase; Provisional; Region: PRK14424 1249661013599 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1249661013600 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1249661013601 putative NADP binding site [chemical binding]; other site 1249661013602 putative substrate binding site [chemical binding]; other site 1249661013603 active site 1249661013604 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 1249661013605 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1249661013606 active site 1249661013607 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 1249661013608 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1249661013609 LytB protein; Region: LYTB; pfam02401 1249661013610 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 1249661013611 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 1249661013612 FeS/SAM binding site; other site 1249661013613 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 1249661013614 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1249661013615 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661013616 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013617 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 1249661013618 putative substrate binding pocket [chemical binding]; other site 1249661013619 putative dimerization interface [polypeptide binding]; other site 1249661013620 aminotransferase; Validated; Region: PRK07046 1249661013621 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 1249661013622 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661013623 catalytic residue [active] 1249661013624 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 1249661013625 sequence-specific DNA binding site [nucleotide binding]; other site 1249661013626 salt bridge; other site 1249661013627 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1249661013628 carbon starvation protein A; Provisional; Region: PRK15015 1249661013629 Carbon starvation protein CstA; Region: CstA; pfam02554 1249661013630 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1249661013631 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1249661013632 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1249661013633 MlrC C-terminus; Region: MlrC_C; pfam07171 1249661013634 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1249661013635 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1249661013636 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1249661013637 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661013638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661013639 metal binding site [ion binding]; metal-binding site 1249661013640 active site 1249661013641 I-site; other site 1249661013642 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 1249661013643 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1249661013644 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661013645 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661013646 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 1249661013647 dimer interface [polypeptide binding]; other site 1249661013648 conserved gate region; other site 1249661013649 putative PBP binding loops; other site 1249661013650 ABC-ATPase subunit interface; other site 1249661013651 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 1249661013652 dimer interface [polypeptide binding]; other site 1249661013653 conserved gate region; other site 1249661013654 putative PBP binding loops; other site 1249661013655 ABC-ATPase subunit interface; other site 1249661013656 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1249661013657 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661013658 Coenzyme A binding pocket [chemical binding]; other site 1249661013659 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1249661013660 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1249661013661 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661013662 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1249661013663 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249661013664 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013665 putative substrate translocation pore; other site 1249661013666 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1249661013667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013668 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 1249661013669 dimerization interface [polypeptide binding]; other site 1249661013670 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1249661013671 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 1249661013672 phosphate binding site [ion binding]; other site 1249661013673 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1249661013674 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1249661013675 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661013676 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013677 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 1249661013678 dimerization interface [polypeptide binding]; other site 1249661013679 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1249661013680 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 1249661013681 E3 interaction surface; other site 1249661013682 lipoyl attachment site [posttranslational modification]; other site 1249661013683 e3 binding domain; Region: E3_binding; pfam02817 1249661013684 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1249661013685 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1249661013686 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 1249661013687 alpha subunit interface [polypeptide binding]; other site 1249661013688 TPP binding site [chemical binding]; other site 1249661013689 heterodimer interface [polypeptide binding]; other site 1249661013690 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1249661013691 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1249661013692 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 1249661013693 tetramer interface [polypeptide binding]; other site 1249661013694 TPP-binding site [chemical binding]; other site 1249661013695 heterodimer interface [polypeptide binding]; other site 1249661013696 phosphorylation loop region [posttranslational modification] 1249661013697 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1249661013698 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1249661013699 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661013700 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661013701 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661013702 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661013703 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661013704 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1249661013705 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661013706 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661013707 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661013708 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1249661013709 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661013710 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661013711 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1249661013712 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661013713 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661013714 Special lobe-specific silk protein SSP160; Region: SSP160; pfam06933 1249661013715 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1249661013716 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1249661013717 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1249661013718 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1249661013719 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1249661013720 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1249661013721 ImpE protein; Region: ImpE; pfam07024 1249661013722 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 1249661013723 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1249661013724 Walker A motif; other site 1249661013725 ATP binding site [chemical binding]; other site 1249661013726 Walker B motif; other site 1249661013727 arginine finger; other site 1249661013728 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 1249661013729 Walker A motif; other site 1249661013730 ATP binding site [chemical binding]; other site 1249661013731 Walker B motif; other site 1249661013732 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1249661013733 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1249661013734 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1249661013735 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1249661013736 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1249661013737 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1249661013738 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1249661013739 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1249661013740 hypothetical protein; Provisional; Region: PRK08126 1249661013741 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1249661013742 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661013743 ligand binding site [chemical binding]; other site 1249661013744 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1249661013745 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1249661013746 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1249661013747 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1249661013748 short chain dehydrogenase; Provisional; Region: PRK07023 1249661013749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661013750 NAD(P) binding site [chemical binding]; other site 1249661013751 active site 1249661013752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661013753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013754 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 1249661013755 dimerization interface [polypeptide binding]; other site 1249661013756 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1249661013757 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1249661013758 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249661013759 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 1249661013760 substrate binding pocket [chemical binding]; other site 1249661013761 membrane-bound complex binding site; other site 1249661013762 hinge residues; other site 1249661013763 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 1249661013764 putative di-iron ligands [ion binding]; other site 1249661013765 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1249661013766 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1249661013767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013768 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 1249661013769 dimerization interface [polypeptide binding]; other site 1249661013770 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1249661013771 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1249661013772 metal binding site [ion binding]; metal-binding site 1249661013773 putative dimer interface [polypeptide binding]; other site 1249661013774 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013775 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249661013776 putative substrate translocation pore; other site 1249661013777 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661013778 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 1249661013779 trimer interface [polypeptide binding]; other site 1249661013780 eyelet of channel; other site 1249661013781 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 1249661013782 Domain interface; other site 1249661013783 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 1249661013784 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1249661013785 Alpha-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in several bacterial and fungal alpha-amylases including the maltopentaose-forming amylases (G5-amylases). Most alpha-amylases have, in addition to the...; Region: CBM20_alpha_amylase; cd05808 1249661013786 starch-binding site 2 [chemical binding]; other site 1249661013787 starch-binding site 1 [chemical binding]; other site 1249661013788 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1249661013789 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1249661013790 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249661013791 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1249661013792 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249661013793 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661013794 Walker A/P-loop; other site 1249661013795 ATP binding site [chemical binding]; other site 1249661013796 Q-loop/lid; other site 1249661013797 ABC transporter signature motif; other site 1249661013798 Walker B; other site 1249661013799 D-loop; other site 1249661013800 H-loop/switch region; other site 1249661013801 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661013802 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661013803 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 1249661013804 TM-ABC transporter signature motif; other site 1249661013805 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1249661013806 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249661013807 putative ligand binding site [chemical binding]; other site 1249661013808 mercuric reductase; Validated; Region: PRK06370 1249661013809 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661013810 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1249661013811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661013812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661013813 metal binding site [ion binding]; metal-binding site 1249661013814 active site 1249661013815 I-site; other site 1249661013816 helix_turn_helix, Arsenical Resistance Operon Repressor; Region: HTH_ARSR; smart00418 1249661013817 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 1249661013818 S-adenosylmethionine binding site [chemical binding]; other site 1249661013819 SnoaL-like domain; Region: SnoaL_2; pfam12680 1249661013820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661013821 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661013822 NAD(P) binding site [chemical binding]; other site 1249661013823 active site 1249661013824 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1249661013825 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661013826 acyl-activating enzyme (AAE) consensus motif; other site 1249661013827 AMP binding site [chemical binding]; other site 1249661013828 active site 1249661013829 CoA binding site [chemical binding]; other site 1249661013830 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661013831 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1249661013832 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1249661013833 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1249661013834 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1249661013835 pyruvate kinase; Provisional; Region: PRK06247 1249661013836 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 1249661013837 domain interfaces; other site 1249661013838 active site 1249661013839 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1249661013840 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1249661013841 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013842 putative substrate translocation pore; other site 1249661013843 DNA polymerase II; Reviewed; Region: PRK05762 1249661013844 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1249661013845 active site 1249661013846 catalytic site [active] 1249661013847 substrate binding site [chemical binding]; other site 1249661013848 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 1249661013849 active site 1249661013850 metal-binding site 1249661013851 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 1249661013852 catalytic residues [active] 1249661013853 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 1249661013854 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1249661013855 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1249661013856 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1249661013857 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1249661013858 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 1249661013859 Beta-lactamase; Region: Beta-lactamase; pfam00144 1249661013860 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1249661013861 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 1249661013862 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1249661013863 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 1249661013864 putative dimer interface [polypeptide binding]; other site 1249661013865 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1249661013866 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1249661013867 hexamer interface [polypeptide binding]; other site 1249661013868 ligand binding site [chemical binding]; other site 1249661013869 putative active site [active] 1249661013870 NAD(P) binding site [chemical binding]; other site 1249661013871 FOG: CBS domain [General function prediction only]; Region: COG0517 1249661013872 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 1249661013873 NAD synthetase; Reviewed; Region: nadE; PRK02628 1249661013874 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1249661013875 multimer interface [polypeptide binding]; other site 1249661013876 active site 1249661013877 catalytic triad [active] 1249661013878 protein interface 1 [polypeptide binding]; other site 1249661013879 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 1249661013880 homodimer interface [polypeptide binding]; other site 1249661013881 NAD binding pocket [chemical binding]; other site 1249661013882 ATP binding pocket [chemical binding]; other site 1249661013883 Mg binding site [ion binding]; other site 1249661013884 active-site loop [active] 1249661013885 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 1249661013886 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1249661013887 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249661013888 active site 1249661013889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1249661013890 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1249661013891 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 1249661013892 putative hydrophobic ligand binding site [chemical binding]; other site 1249661013893 Predicted transcriptional regulators [Transcription]; Region: COG1733 1249661013894 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1249661013895 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661013896 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 1249661013897 C-terminal domain interface [polypeptide binding]; other site 1249661013898 GSH binding site (G-site) [chemical binding]; other site 1249661013899 dimer interface [polypeptide binding]; other site 1249661013900 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1249661013901 N-terminal domain interface [polypeptide binding]; other site 1249661013902 dimer interface [polypeptide binding]; other site 1249661013903 substrate binding pocket (H-site) [chemical binding]; other site 1249661013904 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1249661013905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661013906 NAD(P) binding site [chemical binding]; other site 1249661013907 active site 1249661013908 Predicted transcriptional regulators [Transcription]; Region: COG1733 1249661013909 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1249661013910 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1249661013911 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 1249661013912 catalytic loop [active] 1249661013913 iron binding site [ion binding]; other site 1249661013914 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1249661013915 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249661013916 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 1249661013917 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1249661013918 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1249661013919 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661013920 catalytic residue [active] 1249661013921 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1249661013922 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1249661013923 tetramer interface [polypeptide binding]; other site 1249661013924 heme binding pocket [chemical binding]; other site 1249661013925 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661013926 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1249661013927 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1249661013928 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013929 putative substrate translocation pore; other site 1249661013930 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 1249661013931 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661013932 eyelet of channel; other site 1249661013933 trimer interface [polypeptide binding]; other site 1249661013934 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1249661013935 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661013936 Walker A/P-loop; other site 1249661013937 ATP binding site [chemical binding]; other site 1249661013938 Q-loop/lid; other site 1249661013939 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1249661013940 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661013941 Walker A/P-loop; other site 1249661013942 ATP binding site [chemical binding]; other site 1249661013943 Q-loop/lid; other site 1249661013944 ABC transporter signature motif; other site 1249661013945 Walker B; other site 1249661013946 D-loop; other site 1249661013947 H-loop/switch region; other site 1249661013948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661013949 Walker A/P-loop; other site 1249661013950 ATP binding site [chemical binding]; other site 1249661013951 Q-loop/lid; other site 1249661013952 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1249661013953 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1249661013954 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661013955 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1249661013956 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1249661013957 Metal-binding active site; metal-binding site 1249661013958 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1249661013959 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661013960 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661013961 TIGR03118 family protein; Region: PEPCTERM_chp_1 1249661013962 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661013963 benzoate transport; Region: 2A0115; TIGR00895 1249661013964 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013965 putative substrate translocation pore; other site 1249661013966 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661013967 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1249661013968 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1249661013969 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1249661013970 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1249661013971 tetramer interface [polypeptide binding]; other site 1249661013972 active site 1249661013973 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1249661013974 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 1249661013975 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1249661013976 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249661013977 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661013978 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661013979 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 1249661013980 substrate binding pocket [chemical binding]; other site 1249661013981 dimerization interface [polypeptide binding]; other site 1249661013982 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1249661013983 GTP cyclohydrolase I; Provisional; Region: PLN03044 1249661013984 active site 1249661013985 short chain dehydrogenase; Provisional; Region: PRK09134 1249661013986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661013987 NAD(P) binding site [chemical binding]; other site 1249661013988 active site 1249661013989 serine O-acetyltransferase; Region: cysE; TIGR01172 1249661013990 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 1249661013991 trimer interface [polypeptide binding]; other site 1249661013992 active site 1249661013993 substrate binding site [chemical binding]; other site 1249661013994 CoA binding site [chemical binding]; other site 1249661013995 Transcriptional activator HlyU; Region: HlyU; cl02273 1249661013996 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 1249661013997 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1249661013998 Strictosidine synthase; Region: Str_synth; pfam03088 1249661013999 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1249661014000 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1249661014001 dimer interface [polypeptide binding]; other site 1249661014002 NADP binding site [chemical binding]; other site 1249661014003 catalytic residues [active] 1249661014004 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1249661014005 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 1249661014006 Ligand Binding Site [chemical binding]; other site 1249661014007 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1249661014008 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 1249661014009 ligand binding site [chemical binding]; other site 1249661014010 flexible hinge region; other site 1249661014011 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 1249661014012 putative switch regulator; other site 1249661014013 non-specific DNA interactions [nucleotide binding]; other site 1249661014014 DNA binding site [nucleotide binding] 1249661014015 sequence specific DNA binding site [nucleotide binding]; other site 1249661014016 putative cAMP binding site [chemical binding]; other site 1249661014017 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1249661014018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661014019 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 1249661014020 dimerization interface [polypeptide binding]; other site 1249661014021 Lysine efflux permease [General function prediction only]; Region: COG1279 1249661014022 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1249661014023 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 1249661014024 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1249661014025 FeS/SAM binding site; other site 1249661014026 Protein of unknown function (DUF692); Region: DUF692; cl01263 1249661014027 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1249661014028 Cytochrome P450; Region: p450; cl12078 1249661014029 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249661014030 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661014031 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661014032 putative substrate translocation pore; other site 1249661014033 Cupin superfamily protein; Region: Cupin_4; pfam08007 1249661014034 Cupin domain; Region: Cupin_2; cl17218 1249661014035 Predicted transcriptional regulators [Transcription]; Region: COG1695 1249661014036 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1249661014037 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1249661014038 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 1249661014039 FAD binding pocket [chemical binding]; other site 1249661014040 FAD binding motif [chemical binding]; other site 1249661014041 phosphate binding motif [ion binding]; other site 1249661014042 NAD binding pocket [chemical binding]; other site 1249661014043 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 1249661014044 active site 1249661014045 acetoacetate decarboxylase; Provisional; Region: PRK02265 1249661014046 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 1249661014047 classical (c) SDRs; Region: SDR_c; cd05233 1249661014048 NAD(P) binding site [chemical binding]; other site 1249661014049 active site 1249661014050 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1249661014051 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1249661014052 nucleophile elbow; other site 1249661014053 Patatin phospholipase; Region: DUF3734; pfam12536 1249661014054 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1249661014055 transcriptional activator TtdR; Provisional; Region: PRK09801 1249661014056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661014057 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 1249661014058 putative effector binding pocket; other site 1249661014059 putative dimerization interface [polypeptide binding]; other site 1249661014060 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1249661014061 tartrate dehydrogenase; Region: TTC; TIGR02089 1249661014062 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1249661014063 active site 1249661014064 Zn binding site [ion binding]; other site 1249661014065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1249661014066 SnoaL-like domain; Region: SnoaL_2; pfam12680 1249661014067 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661014068 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661014069 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1249661014070 putative acetyltransferase; Provisional; Region: PRK03624 1249661014071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661014072 Coenzyme A binding pocket [chemical binding]; other site 1249661014073 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1249661014074 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1249661014075 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1249661014076 NAD(P) binding site [chemical binding]; other site 1249661014077 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1249661014078 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 1249661014079 substrate-cofactor binding pocket; other site 1249661014080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661014081 catalytic residue [active] 1249661014082 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1249661014083 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 1249661014084 non-specific DNA binding site [nucleotide binding]; other site 1249661014085 salt bridge; other site 1249661014086 sequence-specific DNA binding site [nucleotide binding]; other site 1249661014087 Cupin domain; Region: Cupin_2; pfam07883 1249661014088 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 1249661014089 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 1249661014090 active site 1249661014091 Int/Topo IB signature motif; other site 1249661014092 catalytic residues [active] 1249661014093 DNA binding site [nucleotide binding] 1249661014094 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1249661014095 Initiator Replication protein; Region: Rep_3; pfam01051 1249661014096 ParB-like nuclease domain; Region: ParB; smart00470 1249661014097 ParA-like protein; Provisional; Region: PHA02518 1249661014098 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 1249661014099 P-loop; other site 1249661014100 Magnesium ion binding site [ion binding]; other site 1249661014101 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 1249661014102 ArsC family; Region: ArsC; pfam03960 1249661014103 catalytic residues [active] 1249661014104 Putative zinc-finger; Region: zf-HC2; pfam13490 1249661014105 RNA polymerase sigma factor; Provisional; Region: PRK12545 1249661014106 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1249661014107 DNA binding residues [nucleotide binding] 1249661014108 Predicted flavoprotein [General function prediction only]; Region: COG0431 1249661014109 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1249661014110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661014111 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 1249661014112 dimer interface [polypeptide binding]; other site 1249661014113 phosphorylation site [posttranslational modification] 1249661014114 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 1249661014115 ATP binding site [chemical binding]; other site 1249661014116 Mg2+ binding site [ion binding]; other site 1249661014117 G-X-G motif; other site 1249661014118 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661014119 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 1249661014120 active site 1249661014121 phosphorylation site [posttranslational modification] 1249661014122 intermolecular recognition site; other site 1249661014123 dimerization interface [polypeptide binding]; other site 1249661014124 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661014125 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 1249661014126 active site 1249661014127 phosphorylation site [posttranslational modification] 1249661014128 intermolecular recognition site; other site 1249661014129 dimerization interface [polypeptide binding]; other site 1249661014130 PAS fold; Region: PAS; pfam00989 1249661014131 PAS domain; Region: PAS; smart00091 1249661014132 putative active site [active] 1249661014133 heme pocket [chemical binding]; other site 1249661014134 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661014135 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661014136 metal binding site [ion binding]; metal-binding site 1249661014137 active site 1249661014138 I-site; other site 1249661014139 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1249661014140 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1249661014141 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661014142 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661014143 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1249661014144 active site lid residues [active] 1249661014145 substrate binding pocket [chemical binding]; other site 1249661014146 catalytic residues [active] 1249661014147 substrate-Mg2+ binding site; other site 1249661014148 aspartate-rich region 1; other site 1249661014149 aspartate-rich region 2; other site 1249661014150 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 1249661014151 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 1249661014152 Active site cavity [active] 1249661014153 catalytic acid [active] 1249661014154 hypothetical protein; Provisional; Region: PRK07077 1249661014155 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249661014156 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 1249661014157 substrate binding pocket [chemical binding]; other site 1249661014158 membrane-bound complex binding site; other site 1249661014159 hinge residues; other site 1249661014160 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661014161 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 1249661014162 dimer interface [polypeptide binding]; other site 1249661014163 conserved gate region; other site 1249661014164 putative PBP binding loops; other site 1249661014165 ABC-ATPase subunit interface; other site 1249661014166 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1249661014167 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1249661014168 Walker A/P-loop; other site 1249661014169 ATP binding site [chemical binding]; other site 1249661014170 Q-loop/lid; other site 1249661014171 ABC transporter signature motif; other site 1249661014172 Walker B; other site 1249661014173 D-loop; other site 1249661014174 H-loop/switch region; other site 1249661014175 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1249661014176 hypothetical protein; Provisional; Region: PRK07483 1249661014177 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 1249661014178 inhibitor-cofactor binding pocket; inhibition site 1249661014179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661014180 catalytic residue [active] 1249661014181 VacJ like lipoprotein; Region: VacJ; cl01073 1249661014182 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 1249661014183 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661014184 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1249661014185 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1249661014186 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 1249661014187 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 1249661014188 putative NAD(P) binding site [chemical binding]; other site 1249661014189 active site 1249661014190 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1249661014191 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1249661014192 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 1249661014193 active site 1249661014194 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1249661014195 active site 1249661014196 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1249661014197 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661014198 putative NADP binding site [chemical binding]; other site 1249661014199 active site 1249661014200 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661014201 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 1249661014202 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1249661014203 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1249661014204 Walker A/P-loop; other site 1249661014205 ATP binding site [chemical binding]; other site 1249661014206 Q-loop/lid; other site 1249661014207 ABC transporter signature motif; other site 1249661014208 Walker B; other site 1249661014209 D-loop; other site 1249661014210 H-loop/switch region; other site 1249661014211 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1249661014212 FtsX-like permease family; Region: FtsX; pfam02687 1249661014213 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1249661014214 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 1249661014215 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1249661014216 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1249661014217 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1249661014218 Lipase (class 2); Region: Lipase_2; pfam01674 1249661014219 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1249661014220 catalytic site [active] 1249661014221 PAS domain; Region: PAS_9; pfam13426 1249661014222 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 1249661014223 putative active site [active] 1249661014224 heme pocket [chemical binding]; other site 1249661014225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661014226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661014227 metal binding site [ion binding]; metal-binding site 1249661014228 active site 1249661014229 I-site; other site 1249661014230 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 1249661014231 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 1249661014232 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1249661014233 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661014234 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 1249661014235 active site 1249661014236 phosphorylation site [posttranslational modification] 1249661014237 intermolecular recognition site; other site 1249661014238 dimerization interface [polypeptide binding]; other site 1249661014239 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 1249661014240 DNA binding residues [nucleotide binding] 1249661014241 dimerization interface [polypeptide binding]; other site 1249661014242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1249661014243 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 1249661014244 Histidine kinase; Region: HisKA_3; pfam07730 1249661014245 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1249661014246 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1249661014247 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1249661014248 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1249661014249 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249661014250 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1249661014251 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249661014252 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1249661014253 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1249661014254 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 1249661014255 non-specific DNA binding site [nucleotide binding]; other site 1249661014256 salt bridge; other site 1249661014257 sequence-specific DNA binding site [nucleotide binding]; other site 1249661014258 Cupin domain; Region: Cupin_2; pfam07883 1249661014259 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 1249661014260 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 1249661014261 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1249661014262 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 1249661014263 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1249661014264 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 1249661014265 dimer interface [polypeptide binding]; other site 1249661014266 conserved gate region; other site 1249661014267 putative PBP binding loops; other site 1249661014268 ABC-ATPase subunit interface; other site 1249661014269 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1249661014270 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1249661014271 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 1249661014272 dimer interface [polypeptide binding]; other site 1249661014273 conserved gate region; other site 1249661014274 putative PBP binding loops; other site 1249661014275 ABC-ATPase subunit interface; other site 1249661014276 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1249661014277 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661014278 Walker A/P-loop; other site 1249661014279 ATP binding site [chemical binding]; other site 1249661014280 Q-loop/lid; other site 1249661014281 ABC transporter signature motif; other site 1249661014282 Walker B; other site 1249661014283 D-loop; other site 1249661014284 H-loop/switch region; other site 1249661014285 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661014286 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661014287 Walker A/P-loop; other site 1249661014288 ATP binding site [chemical binding]; other site 1249661014289 Q-loop/lid; other site 1249661014290 ABC transporter signature motif; other site 1249661014291 Walker B; other site 1249661014292 D-loop; other site 1249661014293 H-loop/switch region; other site 1249661014294 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249661014295 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1249661014296 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 1249661014297 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1249661014298 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1249661014299 Protein export membrane protein; Region: SecD_SecF; cl14618 1249661014300 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661014301 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 1249661014302 trimer interface [polypeptide binding]; other site 1249661014303 eyelet of channel; other site 1249661014304 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 1249661014305 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661014306 catalytic residues [active] 1249661014307 Transglycosylase; Region: Transgly; pfam00912 1249661014308 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1249661014309 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249661014310 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1249661014311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661014312 DNA-binding site [nucleotide binding]; DNA binding site 1249661014313 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1249661014314 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1249661014315 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 1249661014316 putative ligand binding site [chemical binding]; other site 1249661014317 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 1249661014318 TM-ABC transporter signature motif; other site 1249661014319 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1249661014320 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 1249661014321 TM-ABC transporter signature motif; other site 1249661014322 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1249661014323 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1249661014324 Walker A/P-loop; other site 1249661014325 ATP binding site [chemical binding]; other site 1249661014326 Q-loop/lid; other site 1249661014327 ABC transporter signature motif; other site 1249661014328 Walker B; other site 1249661014329 D-loop; other site 1249661014330 H-loop/switch region; other site 1249661014331 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1249661014332 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1249661014333 Walker A/P-loop; other site 1249661014334 ATP binding site [chemical binding]; other site 1249661014335 Q-loop/lid; other site 1249661014336 ABC transporter signature motif; other site 1249661014337 Walker B; other site 1249661014338 D-loop; other site 1249661014339 H-loop/switch region; other site 1249661014340 allantoate amidohydrolase; Reviewed; Region: PRK12893 1249661014341 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1249661014342 active site 1249661014343 metal binding site [ion binding]; metal-binding site 1249661014344 dimer interface [polypeptide binding]; other site 1249661014345 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1249661014346 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1249661014347 MlrC C-terminus; Region: MlrC_C; pfam07171 1249661014348 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 1249661014349 putative active site [active] 1249661014350 putative metal binding site [ion binding]; other site 1249661014351 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 1249661014352 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1249661014353 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 1249661014354 putative dimer interface [polypeptide binding]; other site 1249661014355 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 1249661014356 putative FMN binding site [chemical binding]; other site 1249661014357 NADPH bind site [chemical binding]; other site 1249661014358 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 1249661014359 FOG: CBS domain [General function prediction only]; Region: COG0517 1249661014360 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1249661014361 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1249661014362 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249661014363 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249661014364 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 1249661014365 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; cl00514 1249661014366 FMN binding site [chemical binding]; other site 1249661014367 dimer interface [polypeptide binding]; other site 1249661014368 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1249661014369 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 1249661014370 Predicted kinase [General function prediction only]; Region: COG0645 1249661014371 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 1249661014372 active site 1249661014373 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 1249661014374 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1249661014375 active site 1249661014376 dimer interface [polypeptide binding]; other site 1249661014377 effector binding site; other site 1249661014378 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1249661014379 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1249661014380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1249661014381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661014382 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1249661014383 nucleophile elbow; other site 1249661014384 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1249661014385 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1249661014386 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661014387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661014388 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 1249661014389 substrate binding pocket [chemical binding]; other site 1249661014390 dimerization interface [polypeptide binding]; other site 1249661014391 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 1249661014392 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1249661014393 putative hydrophobic ligand binding site [chemical binding]; other site 1249661014394 protein interface [polypeptide binding]; other site 1249661014395 gate; other site 1249661014396 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1249661014397 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1249661014398 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 1249661014399 tetramer interface [polypeptide binding]; other site 1249661014400 TPP-binding site [chemical binding]; other site 1249661014401 heterodimer interface [polypeptide binding]; other site 1249661014402 phosphorylation loop region [posttranslational modification] 1249661014403 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1249661014404 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 1249661014405 alpha subunit interface [polypeptide binding]; other site 1249661014406 TPP binding site [chemical binding]; other site 1249661014407 heterodimer interface [polypeptide binding]; other site 1249661014408 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1249661014409 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 1249661014410 E3 interaction surface; other site 1249661014411 lipoyl attachment site [posttranslational modification]; other site 1249661014412 e3 binding domain; Region: E3_binding; pfam02817 1249661014413 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 1249661014414 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1249661014415 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1249661014416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661014417 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1249661014418 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1249661014419 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1249661014420 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1249661014421 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661014422 putative substrate translocation pore; other site 1249661014423 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1249661014424 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1249661014425 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 1249661014426 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1249661014427 active site 1249661014428 non-prolyl cis peptide bond; other site 1249661014429 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1249661014430 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249661014431 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 1249661014432 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1249661014433 Walker A motif; other site 1249661014434 ATP binding site [chemical binding]; other site 1249661014435 Walker B motif; other site 1249661014436 arginine finger; other site 1249661014437 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1249661014438 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1249661014439 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 1249661014440 active site 1249661014441 phosphorylation site [posttranslational modification] 1249661014442 intermolecular recognition site; other site 1249661014443 dimerization interface [polypeptide binding]; other site 1249661014444 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 1249661014445 Walker A motif; other site 1249661014446 ATP binding site [chemical binding]; other site 1249661014447 Walker B motif; other site 1249661014448 arginine finger; other site 1249661014449 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661014450 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 1249661014451 PAS domain; Region: PAS_9; pfam13426 1249661014452 putative active site [active] 1249661014453 heme pocket [chemical binding]; other site 1249661014454 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1249661014455 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 1249661014456 putative active site [active] 1249661014457 heme pocket [chemical binding]; other site 1249661014458 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 1249661014459 dimer interface [polypeptide binding]; other site 1249661014460 phosphorylation site [posttranslational modification] 1249661014461 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 1249661014462 ATP binding site [chemical binding]; other site 1249661014463 Mg2+ binding site [ion binding]; other site 1249661014464 G-X-G motif; other site 1249661014465 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1249661014466 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 1249661014467 active site 1249661014468 phosphorylation site [posttranslational modification] 1249661014469 intermolecular recognition site; other site 1249661014470 dimerization interface [polypeptide binding]; other site 1249661014471 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1249661014472 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1249661014473 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661014474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661014475 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 1249661014476 dimerization interface [polypeptide binding]; other site 1249661014477 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249661014478 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1249661014479 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 1249661014480 BON domain; Region: BON; pfam04972 1249661014481 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661014482 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 1249661014483 active site 1249661014484 phosphorylation site [posttranslational modification] 1249661014485 intermolecular recognition site; other site 1249661014486 dimerization interface [polypeptide binding]; other site 1249661014487 PRC-barrel domain; Region: PRC; pfam05239 1249661014488 FOG: CBS domain [General function prediction only]; Region: COG0517 1249661014489 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 1249661014490 MltA-interacting protein MipA; Region: MipA; cl01504 1249661014491 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 1249661014492 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1249661014493 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1249661014494 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 1249661014495 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1249661014496 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1249661014497 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 1249661014498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661014499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661014500 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 1249661014501 dimerization interface [polypeptide binding]; other site 1249661014502 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1249661014503 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661014504 putative substrate translocation pore; other site 1249661014505 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1249661014506 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1249661014507 MlrC C-terminus; Region: MlrC_C; pfam07171 1249661014508 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661014509 DNA-binding site [nucleotide binding]; DNA binding site 1249661014510 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1249661014511 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1249661014512 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661014513 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1249661014514 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249661014515 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1249661014516 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 1249661014517 ATP binding site [chemical binding]; other site 1249661014518 Walker A motif; other site 1249661014519 hexamer interface [polypeptide binding]; other site 1249661014520 Walker B motif; other site 1249661014521 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 1249661014522 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 1249661014523 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 1249661014524 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1249661014525 TadE-like protein; Region: TadE; pfam07811 1249661014526 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1249661014527 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1249661014528 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1249661014529 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249661014530 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1249661014531 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1249661014532 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 1249661014533 active site 1249661014534 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1249661014535 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1249661014536 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1249661014537 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1249661014538 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249661014539 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1249661014540 Ligand binding site; other site 1249661014541 Putative Catalytic site; other site 1249661014542 DXD motif; other site 1249661014543 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249661014544 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 1249661014545 S-adenosylmethionine binding site [chemical binding]; other site 1249661014546 GtrA-like protein; Region: GtrA; pfam04138 1249661014547 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 1249661014548 substrate binding pocket [chemical binding]; other site 1249661014549 membrane-bound complex binding site; other site 1249661014550 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1249661014551 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 1249661014552 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1249661014553 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1249661014554 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1249661014555 phosphopeptide binding site; other site 1249661014556 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1249661014557 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1249661014558 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1249661014559 hypothetical protein; Provisional; Region: PRK07033 1249661014560 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1249661014561 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661014562 ligand binding site [chemical binding]; other site 1249661014563 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1249661014564 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1249661014565 G1 box; other site 1249661014566 GTP/Mg2+ binding site [chemical binding]; other site 1249661014567 G2 box; other site 1249661014568 G3 box; other site 1249661014569 Switch II region; other site 1249661014570 G4 box; other site 1249661014571 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1249661014572 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1249661014573 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 1249661014574 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1249661014575 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1249661014576 active site 1249661014577 ATP binding site [chemical binding]; other site 1249661014578 substrate binding site [chemical binding]; other site 1249661014579 activation loop (A-loop); other site 1249661014580 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1249661014581 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1249661014582 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1249661014583 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1249661014584 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1249661014585 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1249661014586 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1249661014587 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1249661014588 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1249661014589 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1249661014590 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1249661014591 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 1249661014592 Walker A motif; other site 1249661014593 ATP binding site [chemical binding]; other site 1249661014594 Walker B motif; other site 1249661014595 arginine finger; other site 1249661014596 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 1249661014597 Walker A motif; other site 1249661014598 ATP binding site [chemical binding]; other site 1249661014599 Walker B motif; other site 1249661014600 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1249661014601 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1249661014602 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661014603 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661014604 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1249661014605 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1249661014606 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1249661014607 RHS Repeat; Region: RHS_repeat; pfam05593 1249661014608 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1249661014609 RHS Repeat; Region: RHS_repeat; pfam05593 1249661014610 RHS Repeat; Region: RHS_repeat; pfam05593 1249661014611 RHS Repeat; Region: RHS_repeat; cl11982 1249661014612 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1249661014613 RHS protein; Region: RHS; pfam03527 1249661014614 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1249661014615 classical (c) SDRs; Region: SDR_c; cd05233 1249661014616 short chain dehydrogenase; Provisional; Region: PRK07041 1249661014617 NAD(P) binding site [chemical binding]; other site 1249661014618 active site 1249661014619 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661014620 extended (e) SDRs; Region: SDR_e; cd08946 1249661014621 NAD(P) binding site [chemical binding]; other site 1249661014622 active site 1249661014623 substrate binding site [chemical binding]; other site 1249661014624 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1249661014625 metal binding triad [ion binding]; metal-binding site 1249661014626 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1249661014627 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 1249661014628 catalytic core [active] 1249661014629 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1249661014630 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1249661014631 active site 1249661014632 substrate binding site [chemical binding]; other site 1249661014633 metal binding site [ion binding]; metal-binding site 1249661014634 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 1249661014635 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661014636 substrate binding site [chemical binding]; other site 1249661014637 ATP binding site [chemical binding]; other site 1249661014638 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 1249661014639 homotrimer interaction site [polypeptide binding]; other site 1249661014640 putative active site [active] 1249661014641 short chain dehydrogenase; Provisional; Region: PRK07326 1249661014642 classical (c) SDRs; Region: SDR_c; cd05233 1249661014643 NAD(P) binding site [chemical binding]; other site 1249661014644 active site 1249661014645 Putative amidotransferase; Region: DUF4066; pfam13278 1249661014646 conserved cys residue [active] 1249661014647 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 1249661014648 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 1249661014649 CoenzymeA binding site [chemical binding]; other site 1249661014650 subunit interaction site [polypeptide binding]; other site 1249661014651 PHB binding site; other site 1249661014652 acyl-CoA synthetase; Validated; Region: PRK05850 1249661014653 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1249661014654 acyl-activating enzyme (AAE) consensus motif; other site 1249661014655 active site 1249661014656 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1249661014657 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; cd01292 1249661014658 active site 1249661014659 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 1249661014660 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1249661014661 Di-iron ligands [ion binding]; other site 1249661014662 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 1249661014663 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1249661014664 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 1249661014665 S-adenosylmethionine binding site [chemical binding]; other site 1249661014666 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1249661014667 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 1249661014668 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1249661014669 Di-iron ligands [ion binding]; other site 1249661014670 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 1249661014671 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1249661014672 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1249661014673 conserved cys residue [active] 1249661014674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661014675 Isochorismatase family; Region: Isochorismatase; pfam00857 1249661014676 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 1249661014677 catalytic triad [active] 1249661014678 conserved cis-peptide bond; other site 1249661014679 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1249661014680 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 1249661014681 non-specific DNA binding site [nucleotide binding]; other site 1249661014682 salt bridge; other site 1249661014683 sequence-specific DNA binding site [nucleotide binding]; other site 1249661014684 Cupin domain; Region: Cupin_2; pfam07883 1249661014685 EamA-like transporter family; Region: EamA; pfam00892 1249661014686 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1249661014687 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1249661014688 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661014689 acyl-activating enzyme (AAE) consensus motif; other site 1249661014690 AMP binding site [chemical binding]; other site 1249661014691 active site 1249661014692 CoA binding site [chemical binding]; other site 1249661014693 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1249661014694 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1249661014695 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249661014696 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249661014697 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1249661014698 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 1249661014699 carboxyltransferase (CT) interaction site; other site 1249661014700 biotinylation site [posttranslational modification]; other site 1249661014701 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 1249661014702 enoyl-CoA hydratase; Provisional; Region: PRK07468 1249661014703 substrate binding site [chemical binding]; other site 1249661014704 oxyanion hole (OAH) forming residues; other site 1249661014705 trimer interface [polypeptide binding]; other site 1249661014706 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661014707 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661014708 active site 1249661014709 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1249661014710 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1249661014711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661014712 NAD(P) binding site [chemical binding]; other site 1249661014713 active site 1249661014714 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661014715 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661014716 active site 1249661014717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661014718 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661014719 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661014720 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661014721 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661014722 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661014723 putative substrate translocation pore; other site 1249661014724 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661014725 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 1249661014726 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 1249661014727 ATP binding site [chemical binding]; other site 1249661014728 substrate interface [chemical binding]; other site 1249661014729 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 1249661014730 active site residue [active] 1249661014731 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1249661014732 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1249661014733 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661014734 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 1249661014735 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 1249661014736 FeS/SAM binding site; other site 1249661014737 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1249661014738 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 1249661014739 catalytic triad [active] 1249661014740 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249661014741 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 1249661014742 S-adenosylmethionine binding site [chemical binding]; other site 1249661014743 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1249661014744 homodimer interaction site [polypeptide binding]; other site 1249661014745 cofactor binding site; other site 1249661014746 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1249661014747 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1249661014748 Ubiquitin-like proteins; Region: UBQ; cl00155 1249661014749 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661014750 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1249661014751 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1249661014752 active site 1249661014753 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 1249661014754 N- and C-terminal domain interface [polypeptide binding]; other site 1249661014755 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1249661014756 active site 1249661014757 MgATP binding site [chemical binding]; other site 1249661014758 catalytic site [active] 1249661014759 metal binding site [ion binding]; metal-binding site 1249661014760 xylulose binding site [chemical binding]; other site 1249661014761 putative homodimer interface [polypeptide binding]; other site 1249661014762 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 1249661014763 D-mannose binding lectin; Region: B_lectin; pfam01453 1249661014764 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1249661014765 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 1249661014766 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661014767 catalytic residue [active] 1249661014768 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1249661014769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661014770 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 1249661014771 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1249661014772 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 1249661014773 active site 1249661014774 homodimer interface [polypeptide binding]; other site 1249661014775 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1249661014776 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1249661014777 DXD motif; other site 1249661014778 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1249661014779 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1249661014780 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1249661014781 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 1249661014782 glutaminase active site [active] 1249661014783 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 1249661014784 dimer interface [polypeptide binding]; other site 1249661014785 active site 1249661014786 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 1249661014787 dimer interface [polypeptide binding]; other site 1249661014788 active site 1249661014789 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1249661014790 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 1249661014791 ATP binding site [chemical binding]; other site 1249661014792 Mg++ binding site [ion binding]; other site 1249661014793 motif III; other site 1249661014794 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 1249661014795 nucleotide binding region [chemical binding]; other site 1249661014796 ATP-binding site [chemical binding]; other site 1249661014797 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1249661014798 putative RNA binding site [nucleotide binding]; other site 1249661014799 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1249661014800 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1249661014801 Iron permease FTR1 family; Region: FTR1; cl00475 1249661014802 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1249661014803 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1249661014804 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1249661014805 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1249661014806 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1249661014807 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1249661014808 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1249661014809 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1249661014810 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 1249661014811 dimerization interface [polypeptide binding]; other site 1249661014812 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 1249661014813 dimer interface [polypeptide binding]; other site 1249661014814 phosphorylation site [posttranslational modification] 1249661014815 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 1249661014816 ATP binding site [chemical binding]; other site 1249661014817 Mg2+ binding site [ion binding]; other site 1249661014818 G-X-G motif; other site 1249661014819 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1249661014820 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 1249661014821 active site 1249661014822 phosphorylation site [posttranslational modification] 1249661014823 intermolecular recognition site; other site 1249661014824 dimerization interface [polypeptide binding]; other site 1249661014825 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 1249661014826 DNA binding site [nucleotide binding] 1249661014827 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1249661014828 active site 1249661014829 catalytic triad [active] 1249661014830 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 1249661014831 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1249661014832 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1249661014833 putative uracil binding site [chemical binding]; other site 1249661014834 putative active site [active] 1249661014835 aldolase II superfamily protein; Provisional; Region: PRK07044 1249661014836 intersubunit interface [polypeptide binding]; other site 1249661014837 active site 1249661014838 Zn2+ binding site [ion binding]; other site 1249661014839 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1249661014840 dinuclear metal binding motif [ion binding]; other site 1249661014841 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1249661014842 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249661014843 active site 1249661014844 metal binding site [ion binding]; metal-binding site 1249661014845 Catalytic domain, repeat 1, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_1; cd09120 1249661014846 Deoxyribonuclease II; Region: DNase_II; pfam03265 1249661014847 putative active site [active] 1249661014848 catalytic site [active] 1249661014849 Catalytic domain, repeat 2, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_2; cd09121 1249661014850 putative active site [active] 1249661014851 catalytic site [active] 1249661014852 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1249661014853 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1249661014854 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1249661014855 putative metal binding site [ion binding]; other site 1249661014856 putative homodimer interface [polypeptide binding]; other site 1249661014857 putative homotetramer interface [polypeptide binding]; other site 1249661014858 putative homodimer-homodimer interface [polypeptide binding]; other site 1249661014859 putative allosteric switch controlling residues; other site 1249661014860 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 1249661014861 tyrosine kinase; Provisional; Region: PRK11519 1249661014862 Chain length determinant protein; Region: Wzz; pfam02706 1249661014863 5' nucleotidase family; Region: 5_nucleotid; cl17687 1249661014864 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1249661014865 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 1249661014866 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1249661014867 Phospholipid methyltransferase; Region: PEMT; cl17370 1249661014868 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 1249661014869 peptidase domain interface [polypeptide binding]; other site 1249661014870 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1249661014871 active site 1249661014872 catalytic triad [active] 1249661014873 calcium binding site [ion binding]; other site 1249661014874 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 1249661014875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1249661014876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1249661014877 metal binding site [ion binding]; metal-binding site 1249661014878 active site 1249661014879 I-site; other site 1249661014880 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661014881 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1249661014882 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1249661014883 short chain dehydrogenase; Provisional; Region: PRK07832 1249661014884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661014885 NAD(P) binding site [chemical binding]; other site 1249661014886 active site 1249661014887 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661014888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661014889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661014890 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 1249661014891 putative effector binding pocket; other site 1249661014892 dimerization interface [polypeptide binding]; other site 1249661014893 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 1249661014894 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661014895 putative C-terminal domain interface [polypeptide binding]; other site 1249661014896 putative GSH binding site (G-site) [chemical binding]; other site 1249661014897 putative dimer interface [polypeptide binding]; other site 1249661014898 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1249661014899 putative N-terminal domain interface [polypeptide binding]; other site 1249661014900 putative dimer interface [polypeptide binding]; other site 1249661014901 putative substrate binding pocket (H-site) [chemical binding]; other site 1249661014902 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1249661014903 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1249661014904 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1249661014905 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 1249661014906 FAD binding pocket [chemical binding]; other site 1249661014907 FAD binding motif [chemical binding]; other site 1249661014908 phosphate binding motif [ion binding]; other site 1249661014909 beta-alpha-beta structure motif; other site 1249661014910 NAD binding pocket [chemical binding]; other site 1249661014911 Heme binding pocket [chemical binding]; other site 1249661014912 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 1249661014913 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1249661014914 catalytic loop [active] 1249661014915 iron binding site [ion binding]; other site 1249661014916 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1249661014917 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1249661014918 Nucleoside recognition; Region: Gate; pfam07670 1249661014919 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1249661014920 Class I aldolases; Region: Aldolase_Class_I; cl17187 1249661014921 catalytic residue [active] 1249661014922 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 1249661014923 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1249661014924 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1249661014925 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 1249661014926 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1249661014927 active site 1249661014928 catalytic motif [active] 1249661014929 Zn binding site [ion binding]; other site 1249661014930 periplasmic protein; Provisional; Region: PRK10568 1249661014931 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1249661014932 BON domain; Region: BON; pfam04972 1249661014933 BON domain; Region: BON; pfam04972 1249661014934 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1249661014935 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 1249661014936 putative substrate binding site [chemical binding]; other site 1249661014937 putative ATP binding site [chemical binding]; other site 1249661014938 acetate kinase; Provisional; Region: PRK07058 1249661014939 propionate/acetate kinase; Provisional; Region: PRK12379 1249661014940 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1249661014941 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 1249661014942 dimer interaction site [polypeptide binding]; other site 1249661014943 substrate-binding tunnel; other site 1249661014944 active site 1249661014945 catalytic site [active] 1249661014946 substrate binding site [chemical binding]; other site 1249661014947 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1249661014948 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 1249661014949 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1249661014950 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1249661014951 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 1249661014952 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 1249661014953 alpha subunit interaction interface [polypeptide binding]; other site 1249661014954 Walker A motif; other site 1249661014955 ATP binding site [chemical binding]; other site 1249661014956 Walker B motif; other site 1249661014957 inhibitor binding site; inhibition site 1249661014958 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1249661014959 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 1249661014960 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1249661014961 gamma subunit interface [polypeptide binding]; other site 1249661014962 epsilon subunit interface [polypeptide binding]; other site 1249661014963 LBP interface [polypeptide binding]; other site 1249661014964 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1249661014965 F0F1 ATP synthase subunit A; Provisional; Region: PRK13421 1249661014966 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 1249661014967 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 1249661014968 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1249661014969 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 1249661014970 Walker A motif; other site 1249661014971 ATP binding site [chemical binding]; other site 1249661014972 Walker B motif; other site 1249661014973 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1249661014974 ATP synthase; Region: ATP-synt; pfam00231 1249661014975 core domain interface [polypeptide binding]; other site 1249661014976 delta subunit interface [polypeptide binding]; other site 1249661014977 epsilon subunit interface [polypeptide binding]; other site 1249661014978 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1249661014979 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1249661014980 NAD binding site [chemical binding]; other site 1249661014981 substrate binding site [chemical binding]; other site 1249661014982 catalytic Zn binding site [ion binding]; other site 1249661014983 tetramer interface [polypeptide binding]; other site 1249661014984 structural Zn binding site [ion binding]; other site 1249661014985 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1249661014986 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1249661014987 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1249661014988 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1249661014989 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1249661014990 Walker A/P-loop; other site 1249661014991 ATP binding site [chemical binding]; other site 1249661014992 Q-loop/lid; other site 1249661014993 ABC transporter signature motif; other site 1249661014994 Walker B; other site 1249661014995 D-loop; other site 1249661014996 H-loop/switch region; other site 1249661014997 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1249661014998 Walker A/P-loop; other site 1249661014999 ATP binding site [chemical binding]; other site 1249661015000 Q-loop/lid; other site 1249661015001 ABC transporter signature motif; other site 1249661015002 Walker B; other site 1249661015003 D-loop; other site 1249661015004 H-loop/switch region; other site 1249661015005 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1249661015006 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1249661015007 HlyD family secretion protein; Region: HlyD; pfam00529 1249661015008 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661015009 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661015010 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661015011 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661015012 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 1249661015013 Ligand Binding Site [chemical binding]; other site 1249661015014 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 1249661015015 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249661015016 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1249661015017 FtsX-like permease family; Region: FtsX; pfam02687 1249661015018 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1249661015019 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1249661015020 Walker A/P-loop; other site 1249661015021 ATP binding site [chemical binding]; other site 1249661015022 Q-loop/lid; other site 1249661015023 ABC transporter signature motif; other site 1249661015024 Walker B; other site 1249661015025 D-loop; other site 1249661015026 H-loop/switch region; other site 1249661015027 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1249661015028 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661015029 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661015030 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 1249661015031 putative active site [active] 1249661015032 putative metal binding site [ion binding]; other site 1249661015033 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1249661015034 BON domain; Region: BON; pfam04972 1249661015035 BON domain; Region: BON; pfam04972 1249661015036 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1249661015037 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 1249661015038 Cytochrome c; Region: Cytochrom_C; cl11414 1249661015039 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 1249661015040 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1249661015041 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1249661015042 putative NAD(P) binding site [chemical binding]; other site 1249661015043 putative substrate binding site [chemical binding]; other site 1249661015044 catalytic Zn binding site [ion binding]; other site 1249661015045 structural Zn binding site [ion binding]; other site 1249661015046 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1249661015047 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 1249661015048 ligand binding site [chemical binding]; other site 1249661015049 flexible hinge region; other site 1249661015050 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 1249661015051 putative switch regulator; other site 1249661015052 non-specific DNA interactions [nucleotide binding]; other site 1249661015053 DNA binding site [nucleotide binding] 1249661015054 sequence specific DNA binding site [nucleotide binding]; other site 1249661015055 putative cAMP binding site [chemical binding]; other site 1249661015056 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1249661015057 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1249661015058 NAD(P) binding site [chemical binding]; other site 1249661015059 homotetramer interface [polypeptide binding]; other site 1249661015060 homodimer interface [polypeptide binding]; other site 1249661015061 active site 1249661015062 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1249661015063 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1249661015064 Beta-Casp domain; Region: Beta-Casp; smart01027 1249661015065 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1249661015066 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1249661015067 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1249661015068 lysine transporter; Provisional; Region: PRK10836 1249661015069 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 1249661015070 Asp-box motif; other site 1249661015071 Isochorismatase family; Region: Isochorismatase; pfam00857 1249661015072 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 1249661015073 catalytic triad [active] 1249661015074 conserved cis-peptide bond; other site 1249661015075 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1249661015076 MarR family; Region: MarR; pfam01047 1249661015077 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1249661015078 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1249661015079 putative NAD(P) binding site [chemical binding]; other site 1249661015080 active site 1249661015081 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1249661015082 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 1249661015083 catalytic loop [active] 1249661015084 iron binding site [ion binding]; other site 1249661015085 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 1249661015086 FAD binding pocket [chemical binding]; other site 1249661015087 FAD binding motif [chemical binding]; other site 1249661015088 phosphate binding motif [ion binding]; other site 1249661015089 beta-alpha-beta structure motif; other site 1249661015090 NAD binding pocket [chemical binding]; other site 1249661015091 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 1249661015092 inter-subunit interface; other site 1249661015093 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1249661015094 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 1249661015095 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 1249661015096 putative alpha subunit interface [polypeptide binding]; other site 1249661015097 putative active site [active] 1249661015098 putative substrate binding site [chemical binding]; other site 1249661015099 Fe binding site [ion binding]; other site 1249661015100 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1249661015101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661015102 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 1249661015103 dimerizarion interface [polypeptide binding]; other site 1249661015104 CrgA pocket; other site 1249661015105 substrate binding pocket [chemical binding]; other site 1249661015106 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 1249661015107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661015108 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1249661015109 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661015110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661015111 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1249661015112 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 1249661015113 active site 1249661015114 FMN binding site [chemical binding]; other site 1249661015115 2,4-decadienoyl-CoA binding site; other site 1249661015116 catalytic residue [active] 1249661015117 4Fe-4S cluster binding site [ion binding]; other site 1249661015118 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1249661015119 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1249661015120 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1249661015121 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1249661015122 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1249661015123 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 1249661015124 D-pathway; other site 1249661015125 Putative ubiquinol binding site [chemical binding]; other site 1249661015126 Low-spin heme (heme b) binding site [chemical binding]; other site 1249661015127 Putative water exit pathway; other site 1249661015128 Binuclear center (heme o3/CuB) [ion binding]; other site 1249661015129 K-pathway; other site 1249661015130 Putative proton exit pathway; other site 1249661015131 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 1249661015132 Subunit I/III interface [polypeptide binding]; other site 1249661015133 Subunit III/IV interface [polypeptide binding]; other site 1249661015134 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1249661015135 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1249661015136 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1249661015137 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 1249661015138 dimer interface [polypeptide binding]; other site 1249661015139 active site 1249661015140 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 1249661015141 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1249661015142 metal binding site [ion binding]; metal-binding site 1249661015143 substrate binding pocket [chemical binding]; other site 1249661015144 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1249661015145 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661015146 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 1249661015147 dimerization interface [polypeptide binding]; other site 1249661015148 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661015149 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 1249661015150 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 1249661015151 putative alpha subunit interface [polypeptide binding]; other site 1249661015152 putative active site [active] 1249661015153 putative substrate binding site [chemical binding]; other site 1249661015154 Fe binding site [ion binding]; other site 1249661015155 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 1249661015156 inter-subunit interface; other site 1249661015157 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 1249661015158 [2Fe-2S] cluster binding site [ion binding]; other site 1249661015159 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1249661015160 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661015161 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661015162 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 1249661015163 HIT family signature motif; other site 1249661015164 catalytic residue [active] 1249661015165 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1249661015166 PLD-like domain; Region: PLDc_2; pfam13091 1249661015167 putative active site [active] 1249661015168 catalytic site [active] 1249661015169 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1249661015170 PLD-like domain; Region: PLDc_2; pfam13091 1249661015171 putative active site [active] 1249661015172 catalytic site [active] 1249661015173 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1249661015174 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1249661015175 acetolactate synthase; Reviewed; Region: PRK08322 1249661015176 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249661015177 PYR/PP interface [polypeptide binding]; other site 1249661015178 dimer interface [polypeptide binding]; other site 1249661015179 TPP binding site [chemical binding]; other site 1249661015180 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249661015181 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 1249661015182 TPP-binding site [chemical binding]; other site 1249661015183 dimer interface [polypeptide binding]; other site 1249661015184 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 1249661015185 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249661015186 NAD(P) binding site [chemical binding]; other site 1249661015187 catalytic residues [active] 1249661015188 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661015189 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 1249661015190 active site 1249661015191 phosphorylation site [posttranslational modification] 1249661015192 intermolecular recognition site; other site 1249661015193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661015194 dimerization interface [polypeptide binding]; other site 1249661015195 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 1249661015196 dimer interface [polypeptide binding]; other site 1249661015197 phosphorylation site [posttranslational modification] 1249661015198 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 1249661015199 ATP binding site [chemical binding]; other site 1249661015200 Mg2+ binding site [ion binding]; other site 1249661015201 G-X-G motif; other site 1249661015202 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1249661015203 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1249661015204 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 1249661015205 dimerization interface [polypeptide binding]; other site 1249661015206 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661015207 dimer interface [polypeptide binding]; other site 1249661015208 putative CheW interface [polypeptide binding]; other site 1249661015209 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1249661015210 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1249661015211 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 1249661015212 S-adenosylmethionine binding site [chemical binding]; other site 1249661015213 TPR repeat; Region: TPR_11; pfam13414 1249661015214 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 1249661015215 binding surface 1249661015216 TPR motif; other site 1249661015217 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1249661015218 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 1249661015219 putative binding surface; other site 1249661015220 active site 1249661015221 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 1249661015222 ATP binding site [chemical binding]; other site 1249661015223 Mg2+ binding site [ion binding]; other site 1249661015224 G-X-G motif; other site 1249661015225 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 1249661015226 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661015227 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 1249661015228 active site 1249661015229 phosphorylation site [posttranslational modification] 1249661015230 intermolecular recognition site; other site 1249661015231 dimerization interface [polypeptide binding]; other site 1249661015232 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1249661015233 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 1249661015234 active site 1249661015235 phosphorylation site [posttranslational modification] 1249661015236 intermolecular recognition site; other site 1249661015237 CheB methylesterase; Region: CheB_methylest; pfam01339 1249661015238 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1249661015239 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 1249661015240 motif II; other site 1249661015241 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; cl02915 1249661015242 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1249661015243 Cl- selectivity filter; other site 1249661015244 Cl- binding residues [ion binding]; other site 1249661015245 pore gating glutamate residue; other site 1249661015246 dimer interface [polypeptide binding]; other site 1249661015247 CAAX protease self-immunity; Region: Abi; pfam02517 1249661015248 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 1249661015249 Helix-turn-helix domain; Region: HTH_17; cl17695 1249661015250 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 1249661015251 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1249661015252 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 1249661015253 active site 1249661015254 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1249661015255 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1249661015256 active site 1249661015257 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1249661015258 HIGH motif; other site 1249661015259 dimer interface [polypeptide binding]; other site 1249661015260 KMSKS motif; other site 1249661015261 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1249661015262 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1249661015263 conserved cys residue [active] 1249661015264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661015265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661015266 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1249661015267 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1249661015268 conserved cys residue [active] 1249661015269 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1249661015270 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1249661015271 Walker A/P-loop; other site 1249661015272 ATP binding site [chemical binding]; other site 1249661015273 Q-loop/lid; other site 1249661015274 ABC transporter signature motif; other site 1249661015275 Walker B; other site 1249661015276 D-loop; other site 1249661015277 H-loop/switch region; other site 1249661015278 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 1249661015279 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1249661015280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661015281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661015282 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 1249661015283 substrate binding pocket [chemical binding]; other site 1249661015284 dimerization interface [polypeptide binding]; other site 1249661015285 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661015286 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661015287 active site 1249661015288 Phosphotransferase enzyme family; Region: APH; pfam01636 1249661015289 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 1249661015290 putative active site [active] 1249661015291 putative substrate binding site [chemical binding]; other site 1249661015292 ATP binding site [chemical binding]; other site 1249661015293 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 1249661015294 catalytic core [active] 1249661015295 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1249661015296 short chain dehydrogenase; Provisional; Region: PRK07035 1249661015297 classical (c) SDRs; Region: SDR_c; cd05233 1249661015298 NAD(P) binding site [chemical binding]; other site 1249661015299 active site 1249661015300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661015301 short chain dehydrogenase; Validated; Region: PRK07069 1249661015302 NAD(P) binding site [chemical binding]; other site 1249661015303 active site 1249661015304 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1249661015305 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1249661015306 NAD(P) binding site [chemical binding]; other site 1249661015307 substrate binding site [chemical binding]; other site 1249661015308 dimer interface [polypeptide binding]; other site 1249661015309 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661015310 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 1249661015311 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 1249661015312 N-terminal plug; other site 1249661015313 ligand-binding site [chemical binding]; other site 1249661015314 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1249661015315 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1249661015316 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1249661015317 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1249661015318 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 1249661015319 generic binding surface II; other site 1249661015320 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1249661015321 putative active site [active] 1249661015322 putative catalytic site [active] 1249661015323 putative Mg binding site IVb [ion binding]; other site 1249661015324 putative phosphate binding site [ion binding]; other site 1249661015325 putative DNA binding site [nucleotide binding]; other site 1249661015326 putative Mg binding site IVa [ion binding]; other site 1249661015327 YCII-related domain; Region: YCII; cl00999 1249661015328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1249661015329 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1249661015330 putative hydrophobic ligand binding site [chemical binding]; other site 1249661015331 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1249661015332 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661015333 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1249661015334 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 1249661015335 amidase catalytic site [active] 1249661015336 Zn binding residues [ion binding]; other site 1249661015337 substrate binding site [chemical binding]; other site 1249661015338 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1249661015339 Rubrerythrin [Energy production and conversion]; Region: COG1592 1249661015340 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1249661015341 binuclear metal center [ion binding]; other site 1249661015342 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1249661015343 Cysteine-rich domain; Region: CCG; pfam02754 1249661015344 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 1249661015345 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1249661015346 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1249661015347 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1249661015348 Substrate binding site; other site 1249661015349 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1249661015350 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1249661015351 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1249661015352 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1249661015353 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1249661015354 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1249661015355 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1249661015356 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1249661015357 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1249661015358 active site 1249661015359 polysaccharide export protein Wza; Provisional; Region: PRK15078 1249661015360 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1249661015361 SLBB domain; Region: SLBB; pfam10531 1249661015362 SLBB domain; Region: SLBB; pfam10531 1249661015363 tyrosine kinase; Provisional; Region: PRK11519 1249661015364 Chain length determinant protein; Region: Wzz; cl15801 1249661015365 Chain length determinant protein; Region: Wzz; cl15801 1249661015366 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1249661015367 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 1249661015368 P-loop; other site 1249661015369 Magnesium ion binding site [ion binding]; other site 1249661015370 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1249661015371 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1249661015372 DXD motif; other site 1249661015373 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661015374 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 1249661015375 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 1249661015376 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1249661015377 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 1249661015378 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1249661015379 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661015380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661015381 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661015382 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1249661015383 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249661015384 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1249661015385 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1249661015386 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1249661015387 RES domain; Region: RES; smart00953 1249661015388 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1249661015389 active site 1249661015390 metal binding site [ion binding]; metal-binding site 1249661015391 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1249661015392 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 1249661015393 putative hydrophobic ligand binding site [chemical binding]; other site 1249661015394 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 1249661015395 dimerization interface [polypeptide binding]; other site 1249661015396 putative DNA binding site [nucleotide binding]; other site 1249661015397 putative Zn2+ binding site [ion binding]; other site 1249661015398 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661015399 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661015400 acyl-activating enzyme (AAE) consensus motif; other site 1249661015401 AMP binding site [chemical binding]; other site 1249661015402 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015403 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1249661015404 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1249661015405 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1249661015406 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1249661015407 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 1249661015408 homodimer interface [polypeptide binding]; other site 1249661015409 substrate-cofactor binding pocket; other site 1249661015410 catalytic residue [active] 1249661015411 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1249661015412 acetaldehyde dehydrogenase (acetylating); Region: ac_ald_DH_ac; TIGR03215 1249661015413 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1249661015414 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1249661015415 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1249661015416 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1249661015417 active site 1249661015418 catalytic residues [active] 1249661015419 metal binding site [ion binding]; metal-binding site 1249661015420 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1249661015421 Cupin domain; Region: Cupin_2; cl17218 1249661015422 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661015423 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1249661015424 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661015425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661015426 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 1249661015427 putative deacylase active site [active] 1249661015428 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1249661015429 S-adenosylmethionine binding site [chemical binding]; other site 1249661015430 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 1249661015431 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1249661015432 active site 1249661015433 catalytic site [active] 1249661015434 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1249661015435 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 1249661015436 thiamine phosphate binding site [chemical binding]; other site 1249661015437 active site 1249661015438 pyrophosphate binding site [ion binding]; other site 1249661015439 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1249661015440 Domain of unknown function DUF21; Region: DUF21; pfam01595 1249661015441 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 1249661015442 Transporter associated domain; Region: CorC_HlyC; smart01091 1249661015443 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661015444 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 1249661015445 dimer interface [polypeptide binding]; other site 1249661015446 phosphorylation site [posttranslational modification] 1249661015447 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1249661015448 EamA-like transporter family; Region: EamA; pfam00892 1249661015449 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661015450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661015451 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 1249661015452 dimerization interface [polypeptide binding]; other site 1249661015453 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 1249661015454 active site 1 [active] 1249661015455 dimer interface [polypeptide binding]; other site 1249661015456 hexamer interface [polypeptide binding]; other site 1249661015457 active site 2 [active] 1249661015458 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 1249661015459 dimer interface [polypeptide binding]; other site 1249661015460 hexamer interface [polypeptide binding]; other site 1249661015461 active site 2 [active] 1249661015462 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1249661015463 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1249661015464 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1249661015465 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1249661015466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661015467 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1249661015468 Walker A/P-loop; other site 1249661015469 ATP binding site [chemical binding]; other site 1249661015470 Q-loop/lid; other site 1249661015471 ABC transporter signature motif; other site 1249661015472 Walker B; other site 1249661015473 D-loop; other site 1249661015474 H-loop/switch region; other site 1249661015475 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 1249661015476 dimer interface [polypeptide binding]; other site 1249661015477 conserved gate region; other site 1249661015478 putative PBP binding loops; other site 1249661015479 ABC-ATPase subunit interface; other site 1249661015480 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1249661015481 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661015482 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1249661015483 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 1249661015484 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1249661015485 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1249661015486 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 1249661015487 putative DNA binding site [nucleotide binding]; other site 1249661015488 putative Zn2+ binding site [ion binding]; other site 1249661015489 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1249661015490 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 1249661015491 putative active site [active] 1249661015492 putative substrate binding site [chemical binding]; other site 1249661015493 ATP binding site [chemical binding]; other site 1249661015494 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 1249661015495 AMP nucleosidase; Provisional; Region: PRK08292 1249661015496 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1249661015497 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1249661015498 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1249661015499 DNA polymerase I; Provisional; Region: PRK05755 1249661015500 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1249661015501 active site 1249661015502 metal binding site 1 [ion binding]; metal-binding site 1249661015503 putative 5' ssDNA interaction site; other site 1249661015504 metal binding site 3; metal-binding site 1249661015505 metal binding site 2 [ion binding]; metal-binding site 1249661015506 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1249661015507 putative DNA binding site [nucleotide binding]; other site 1249661015508 putative metal binding site [ion binding]; other site 1249661015509 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 1249661015510 active site 1249661015511 catalytic site [active] 1249661015512 substrate binding site [chemical binding]; other site 1249661015513 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1249661015514 active site 1249661015515 DNA binding site [nucleotide binding] 1249661015516 catalytic site [active] 1249661015517 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1249661015518 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661015519 Predicted membrane protein [Function unknown]; Region: COG4655 1249661015520 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1249661015521 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1249661015522 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1249661015523 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1249661015524 active site residue [active] 1249661015525 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 1249661015526 active site residue [active] 1249661015527 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1249661015528 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 1249661015529 [2Fe-2S] cluster binding site [ion binding]; other site 1249661015530 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1249661015531 alpha subunit interface [polypeptide binding]; other site 1249661015532 active site 1249661015533 substrate binding site [chemical binding]; other site 1249661015534 Fe binding site [ion binding]; other site 1249661015535 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1249661015536 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1249661015537 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1249661015538 substrate binding pocket [chemical binding]; other site 1249661015539 chain length determination region; other site 1249661015540 substrate-Mg2+ binding site; other site 1249661015541 catalytic residues [active] 1249661015542 aspartate-rich region 1; other site 1249661015543 active site lid residues [active] 1249661015544 aspartate-rich region 2; other site 1249661015545 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1249661015546 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 1249661015547 TPP-binding site; other site 1249661015548 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 1249661015549 PYR/PP interface [polypeptide binding]; other site 1249661015550 dimer interface [polypeptide binding]; other site 1249661015551 TPP binding site [chemical binding]; other site 1249661015552 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1249661015553 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1249661015554 UGMP family protein; Validated; Region: PRK09604 1249661015555 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1249661015556 Predicted flavoproteins [General function prediction only]; Region: COG2081 1249661015557 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1249661015558 Yqey-like protein; Region: YqeY; pfam09424 1249661015559 DNA primase; Validated; Region: dnaG; PRK05667 1249661015560 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1249661015561 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1249661015562 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 1249661015563 active site 1249661015564 metal binding site [ion binding]; metal-binding site 1249661015565 interdomain interaction site; other site 1249661015566 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1249661015567 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 1249661015568 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1249661015569 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1249661015570 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1249661015571 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1249661015572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661015573 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1249661015574 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 1249661015575 DNA binding residues [nucleotide binding] 1249661015576 PAAR motif; Region: PAAR_motif; pfam05488 1249661015577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661015578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661015579 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661015580 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661015581 putative substrate translocation pore; other site 1249661015582 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1249661015583 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1249661015584 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1249661015585 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1249661015586 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1249661015587 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1249661015588 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1249661015589 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249661015590 intersubunit interface [polypeptide binding]; other site 1249661015591 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1249661015592 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1249661015593 NAD(P) binding pocket [chemical binding]; other site 1249661015594 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 1249661015595 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661015596 active site 1249661015597 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249661015598 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1249661015599 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015600 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1249661015601 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 1249661015602 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661015603 catalytic residue [active] 1249661015604 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1249661015605 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661015606 2,3-dihydroxybenzoate-AMP ligase; Region: DHB_AMP_lig; TIGR02275 1249661015607 acyl-activating enzyme (AAE) consensus motif; other site 1249661015608 AMP binding site [chemical binding]; other site 1249661015609 active site 1249661015610 CoA binding site [chemical binding]; other site 1249661015611 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1249661015612 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 1249661015613 N-terminal plug; other site 1249661015614 ligand-binding site [chemical binding]; other site 1249661015615 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 1249661015616 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249661015617 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 1249661015618 ABC-ATPase subunit interface; other site 1249661015619 dimer interface [polypeptide binding]; other site 1249661015620 putative PBP binding regions; other site 1249661015621 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1249661015622 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249661015623 Walker A/P-loop; other site 1249661015624 ATP binding site [chemical binding]; other site 1249661015625 Q-loop/lid; other site 1249661015626 ABC transporter signature motif; other site 1249661015627 Walker B; other site 1249661015628 D-loop; other site 1249661015629 H-loop/switch region; other site 1249661015630 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1249661015631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661015632 putative substrate translocation pore; other site 1249661015633 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661015634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1249661015635 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661015636 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1249661015637 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661015638 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661015639 putative substrate translocation pore; other site 1249661015640 Winged helix-turn helix; Region: HTH_29; pfam13551 1249661015641 Homeodomain-like domain; Region: HTH_32; pfam13565 1249661015642 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1249661015643 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1249661015644 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661015645 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661015646 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 1249661015647 putative substrate binding pocket [chemical binding]; other site 1249661015648 dimerization interface [polypeptide binding]; other site 1249661015649 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1249661015650 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249661015651 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249661015652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661015653 Walker A/P-loop; other site 1249661015654 ATP binding site [chemical binding]; other site 1249661015655 Q-loop/lid; other site 1249661015656 ABC transporter signature motif; other site 1249661015657 Walker B; other site 1249661015658 D-loop; other site 1249661015659 H-loop/switch region; other site 1249661015660 TOBE domain; Region: TOBE_2; pfam08402 1249661015661 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 1249661015662 dimer interface [polypeptide binding]; other site 1249661015663 conserved gate region; other site 1249661015664 putative PBP binding loops; other site 1249661015665 ABC-ATPase subunit interface; other site 1249661015666 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249661015667 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 1249661015668 putative PBP binding loops; other site 1249661015669 dimer interface [polypeptide binding]; other site 1249661015670 ABC-ATPase subunit interface; other site 1249661015671 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1249661015672 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1249661015673 tetrameric interface [polypeptide binding]; other site 1249661015674 NAD binding site [chemical binding]; other site 1249661015675 catalytic residues [active] 1249661015676 substrate binding site [chemical binding]; other site 1249661015677 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 1249661015678 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661015679 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 1249661015680 trimer interface [polypeptide binding]; other site 1249661015681 eyelet of channel; other site 1249661015682 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 1249661015683 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249661015684 substrate binding pocket [chemical binding]; other site 1249661015685 membrane-bound complex binding site; other site 1249661015686 hinge residues; other site 1249661015687 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661015688 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 1249661015689 putative PBP binding loops; other site 1249661015690 dimer interface [polypeptide binding]; other site 1249661015691 ABC-ATPase subunit interface; other site 1249661015692 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 1249661015693 dimer interface [polypeptide binding]; other site 1249661015694 conserved gate region; other site 1249661015695 putative PBP binding loops; other site 1249661015696 ABC-ATPase subunit interface; other site 1249661015697 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1249661015698 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 1249661015699 active site 1249661015700 non-prolyl cis peptide bond; other site 1249661015701 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249661015702 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661015703 Walker A/P-loop; other site 1249661015704 ATP binding site [chemical binding]; other site 1249661015705 Q-loop/lid; other site 1249661015706 ABC transporter signature motif; other site 1249661015707 Walker B; other site 1249661015708 D-loop; other site 1249661015709 H-loop/switch region; other site 1249661015710 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661015711 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661015712 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 1249661015713 TM-ABC transporter signature motif; other site 1249661015714 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1249661015715 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249661015716 putative ligand binding site [chemical binding]; other site 1249661015717 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1249661015718 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 1249661015719 NMT1-like family; Region: NMT1_2; pfam13379 1249661015720 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1249661015721 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1249661015722 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1249661015723 Walker A/P-loop; other site 1249661015724 ATP binding site [chemical binding]; other site 1249661015725 Q-loop/lid; other site 1249661015726 ABC transporter signature motif; other site 1249661015727 Walker B; other site 1249661015728 D-loop; other site 1249661015729 H-loop/switch region; other site 1249661015730 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1249661015731 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 1249661015732 dimer interface [polypeptide binding]; other site 1249661015733 ABC-ATPase subunit interface; other site 1249661015734 putative PBP binding loops; other site 1249661015735 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661015736 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 1249661015737 active site 1249661015738 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1249661015739 dimer interface [polypeptide binding]; other site 1249661015740 non-prolyl cis peptide bond; other site 1249661015741 insertion regions; other site 1249661015742 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1249661015743 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 1249661015744 Moco binding site; other site 1249661015745 metal coordination site [ion binding]; other site 1249661015746 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 1249661015747 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661015748 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1249661015749 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1249661015750 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1249661015751 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1249661015752 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1249661015753 heme binding site [chemical binding]; other site 1249661015754 ferroxidase pore; other site 1249661015755 ferroxidase diiron center [ion binding]; other site 1249661015756 RNA polymerase sigma factor; Provisional; Region: PRK12528 1249661015757 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1249661015758 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1249661015759 FecR protein; Region: FecR; pfam04773 1249661015760 Secretin and TonB N terminus short domain; Region: STN; smart00965 1249661015761 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1249661015762 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 1249661015763 N-terminal plug; other site 1249661015764 ligand-binding site [chemical binding]; other site 1249661015765 multidrug efflux protein NorA; Provisional; Region: PRK00187 1249661015766 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1249661015767 cation binding site [ion binding]; other site 1249661015768 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 1249661015769 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249661015770 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 1249661015771 ABC-ATPase subunit interface; other site 1249661015772 dimer interface [polypeptide binding]; other site 1249661015773 putative PBP binding regions; other site 1249661015774 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1249661015775 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 1249661015776 ABC-ATPase subunit interface; other site 1249661015777 dimer interface [polypeptide binding]; other site 1249661015778 putative PBP binding regions; other site 1249661015779 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1249661015780 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249661015781 Walker A/P-loop; other site 1249661015782 ATP binding site [chemical binding]; other site 1249661015783 Q-loop/lid; other site 1249661015784 ABC transporter signature motif; other site 1249661015785 Walker B; other site 1249661015786 D-loop; other site 1249661015787 H-loop/switch region; other site 1249661015788 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249661015789 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1249661015790 intersubunit interface [polypeptide binding]; other site 1249661015791 Integrase core domain; Region: rve; pfam00665 1249661015792 Integrase core domain; Region: rve_3; cl15866 1249661015793 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249661015794 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 1249661015795 ABC-ATPase subunit interface; other site 1249661015796 dimer interface [polypeptide binding]; other site 1249661015797 putative PBP binding regions; other site 1249661015798 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1249661015799 N-terminal formyl transferase catalytic core domain of NRPS_like proteins, one of the proteins involved in the synthesis of Oxazolomycin; Region: FMT_core_NRPS_like; cd08649 1249661015800 putative active site [active] 1249661015801 putative substrate binding site [chemical binding]; other site 1249661015802 putative cosubstrate binding site; other site 1249661015803 catalytic site [active] 1249661015804 C-terminal subdomain of the Formyltransferase-like domain found in OzmH-like proteins; Region: FMT_C_OzmH_like; cd08700 1249661015805 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1249661015806 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 1249661015807 Condensation domain; Region: Condensation; pfam00668 1249661015808 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661015809 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661015810 acyl-activating enzyme (AAE) consensus motif; other site 1249661015811 AMP binding site [chemical binding]; other site 1249661015812 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015813 Condensation domain; Region: Condensation; pfam00668 1249661015814 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661015815 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661015816 acyl-activating enzyme (AAE) consensus motif; other site 1249661015817 AMP binding site [chemical binding]; other site 1249661015818 active site 1249661015819 CoA binding site [chemical binding]; other site 1249661015820 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015821 Condensation domain; Region: Condensation; pfam00668 1249661015822 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661015823 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661015824 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661015825 acyl-activating enzyme (AAE) consensus motif; other site 1249661015826 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 1249661015827 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1249661015828 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661015829 AMP binding site [chemical binding]; other site 1249661015830 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015831 Condensation domain; Region: Condensation; pfam00668 1249661015832 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661015833 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661015834 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1249661015835 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661015836 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 1249661015837 active site 1249661015838 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1249661015839 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 1249661015840 active site 1249661015841 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1249661015842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661015843 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1249661015844 NAD(P) binding site [chemical binding]; other site 1249661015845 active site 1249661015846 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1249661015847 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015848 Condensation domain; Region: Condensation; pfam00668 1249661015849 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661015850 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661015851 acyl-activating enzyme (AAE) consensus motif; other site 1249661015852 AMP binding site [chemical binding]; other site 1249661015853 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015854 Condensation domain; Region: Condensation; pfam00668 1249661015855 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661015856 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1249661015857 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1249661015858 acyl-activating enzyme (AAE) consensus motif; other site 1249661015859 AMP binding site [chemical binding]; other site 1249661015860 Cytochrome c; Region: Cytochrom_C; pfam00034 1249661015861 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1249661015862 Beta-lactamase; Region: Beta-lactamase; pfam00144 1249661015863 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1249661015864 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1249661015865 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015866 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 1249661015867 putative FMN binding site [chemical binding]; other site 1249661015868 NADPH bind site [chemical binding]; other site 1249661015869 Condensation domain; Region: Condensation; pfam00668 1249661015870 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661015871 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661015872 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661015873 acyl-activating enzyme (AAE) consensus motif; other site 1249661015874 AMP binding site [chemical binding]; other site 1249661015875 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015876 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1249661015877 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 1249661015878 active site 1249661015879 dimer interface [polypeptide binding]; other site 1249661015880 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 1249661015881 Ligand Binding Site [chemical binding]; other site 1249661015882 Molecular Tunnel; other site 1249661015883 Condensation domain; Region: Condensation; pfam00668 1249661015884 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661015885 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661015886 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661015887 acyl-activating enzyme (AAE) consensus motif; other site 1249661015888 AMP binding site [chemical binding]; other site 1249661015889 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015890 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1249661015891 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1249661015892 acyl-activating enzyme (AAE) consensus motif; other site 1249661015893 AMP binding site [chemical binding]; other site 1249661015894 Condensation domain; Region: Condensation; pfam00668 1249661015895 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661015896 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661015897 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015898 Condensation domain; Region: Condensation; pfam00668 1249661015899 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661015900 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661015901 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661015902 acyl-activating enzyme (AAE) consensus motif; other site 1249661015903 AMP binding site [chemical binding]; other site 1249661015904 active site 1249661015905 CoA binding site [chemical binding]; other site 1249661015906 Condensation domain; Region: Condensation; pfam00668 1249661015907 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1249661015908 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1249661015909 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1249661015910 acyl-activating enzyme (AAE) consensus motif; other site 1249661015911 AMP binding site [chemical binding]; other site 1249661015912 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1249661015913 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 1249661015914 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249661015915 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661015916 Walker A/P-loop; other site 1249661015917 ATP binding site [chemical binding]; other site 1249661015918 Q-loop/lid; other site 1249661015919 ABC transporter signature motif; other site 1249661015920 Walker B; other site 1249661015921 D-loop; other site 1249661015922 H-loop/switch region; other site 1249661015923 MbtH-like protein; Region: MbtH; cl01279 1249661015924 Cupin-like domain; Region: Cupin_8; pfam13621 1249661015925 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1249661015926 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1249661015927 putative FMN binding site [chemical binding]; other site 1249661015928 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1249661015929 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1249661015930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1249661015931 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1249661015932 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1249661015933 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1249661015934 Transglutaminase/protease-like homologues; Region: TGc; smart00460 1249661015935 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1249661015936 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1249661015937 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1249661015938 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1249661015939 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 1249661015940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1249661015941 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1249661015942 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1249661015943 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1249661015944 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1249661015945 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661015946 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 1249661015947 DNA-binding site [nucleotide binding]; DNA binding site 1249661015948 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 1249661015949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661015950 homodimer interface [polypeptide binding]; other site 1249661015951 catalytic residue [active] 1249661015952 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1249661015953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661015954 putative substrate translocation pore; other site 1249661015955 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1249661015956 Lipase (class 2); Region: Lipase_2; pfam01674 1249661015957 DinB superfamily; Region: DinB_2; pfam12867 1249661015958 Predicted membrane protein [Function unknown]; Region: COG1289 1249661015959 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1249661015960 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 1249661015961 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661015962 catalytic residue [active] 1249661015963 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249661015964 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 1249661015965 PYR/PP interface [polypeptide binding]; other site 1249661015966 dimer interface [polypeptide binding]; other site 1249661015967 TPP binding site [chemical binding]; other site 1249661015968 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 1249661015969 TPP-binding site; other site 1249661015970 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1249661015971 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 1249661015972 tetramer interface [polypeptide binding]; other site 1249661015973 active site 1249661015974 Mg2+/Mn2+ binding site [ion binding]; other site 1249661015975 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1249661015976 active site 1249661015977 metal-binding site 1249661015978 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1249661015979 active site 1249661015980 metal-binding site 1249661015981 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1249661015982 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1249661015983 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1249661015984 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1249661015985 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1249661015986 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1249661015987 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1249661015988 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1249661015989 type VI secretion protein, VC_A0107 family; Region: VI_chp_5; TIGR03358 1249661015990 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1249661015991 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1249661015992 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1249661015993 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1249661015994 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1249661015995 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 1249661015996 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1249661015997 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1249661015998 Clp amino terminal domain; Region: Clp_N; pfam02861 1249661015999 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 1249661016000 Walker A motif; other site 1249661016001 ATP binding site [chemical binding]; other site 1249661016002 Walker B motif; other site 1249661016003 arginine finger; other site 1249661016004 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 1249661016005 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 1249661016006 Walker A motif; other site 1249661016007 ATP binding site [chemical binding]; other site 1249661016008 Walker B motif; other site 1249661016009 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1249661016010 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1249661016011 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661016012 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661016013 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1249661016014 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661016015 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661016016 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 1249661016017 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661016018 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661016019 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661016020 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661016021 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1249661016022 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1249661016023 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1249661016024 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1249661016025 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1249661016026 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1249661016027 hypothetical protein; Provisional; Region: PRK14693 1249661016028 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1249661016029 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661016030 ligand binding site [chemical binding]; other site 1249661016031 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1249661016032 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1249661016033 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1249661016034 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249661016035 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1249661016036 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1249661016037 active site 1249661016038 TDP-binding site; other site 1249661016039 acceptor substrate-binding pocket; other site 1249661016040 homodimer interface [polypeptide binding]; other site 1249661016041 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1249661016042 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661016043 putative substrate translocation pore; other site 1249661016044 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661016045 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1249661016046 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1249661016047 Ligand binding site; other site 1249661016048 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661016049 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1249661016050 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661016051 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661016052 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1249661016053 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1249661016054 substrate binding [chemical binding]; other site 1249661016055 active site 1249661016056 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1249661016057 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 1249661016058 active site 1249661016059 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249661016060 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249661016061 DNA binding site [nucleotide binding] 1249661016062 domain linker motif; other site 1249661016063 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 1249661016064 ligand binding site [chemical binding]; other site 1249661016065 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1249661016066 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1249661016067 NAD binding site [chemical binding]; other site 1249661016068 catalytic Zn binding site [ion binding]; other site 1249661016069 structural Zn binding site [ion binding]; other site 1249661016070 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1249661016071 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1249661016072 conserved cys residue [active] 1249661016073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661016074 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1249661016075 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 1249661016076 dimer interface [polypeptide binding]; other site 1249661016077 active site 1249661016078 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1249661016079 folate binding site [chemical binding]; other site 1249661016080 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1249661016081 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 1249661016082 active site 1249661016083 dimer interface [polypeptide binding]; other site 1249661016084 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 1249661016085 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1249661016086 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 1249661016087 putative active site [active] 1249661016088 putative FMN binding site [chemical binding]; other site 1249661016089 putative substrate binding site [chemical binding]; other site 1249661016090 putative catalytic residue [active] 1249661016091 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1249661016092 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1249661016093 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1249661016094 Cysteine-rich domain; Region: CCG; pfam02754 1249661016095 Cysteine-rich domain; Region: CCG; pfam02754 1249661016096 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1249661016097 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1249661016098 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 1249661016099 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1249661016100 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 1249661016101 [2Fe-2S] cluster binding site [ion binding]; other site 1249661016102 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 1249661016103 putative alpha subunit interface [polypeptide binding]; other site 1249661016104 putative active site [active] 1249661016105 putative substrate binding site [chemical binding]; other site 1249661016106 Fe binding site [ion binding]; other site 1249661016107 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1249661016108 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 1249661016109 FAD binding pocket [chemical binding]; other site 1249661016110 FAD binding motif [chemical binding]; other site 1249661016111 phosphate binding motif [ion binding]; other site 1249661016112 beta-alpha-beta structure motif; other site 1249661016113 NAD binding pocket [chemical binding]; other site 1249661016114 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1249661016115 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 1249661016116 catalytic loop [active] 1249661016117 iron binding site [ion binding]; other site 1249661016118 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1249661016119 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1249661016120 Amino acid permease; Region: AA_permease_2; pfam13520 1249661016121 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1249661016122 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1249661016123 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1249661016124 putative active site [active] 1249661016125 putative substrate binding site [chemical binding]; other site 1249661016126 putative cosubstrate binding site; other site 1249661016127 catalytic site [active] 1249661016128 Sulfatase; Region: Sulfatase; cl17466 1249661016129 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661016130 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 1249661016131 trimer interface [polypeptide binding]; other site 1249661016132 eyelet of channel; other site 1249661016133 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1249661016134 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 1249661016135 Peptidase family M28; Region: Peptidase_M28; pfam04389 1249661016136 active site 1249661016137 metal binding site [ion binding]; metal-binding site 1249661016138 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1249661016139 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1249661016140 Zn binding site [ion binding]; other site 1249661016141 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1249661016142 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1249661016143 conserved cys residue [active] 1249661016144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661016145 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1249661016146 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1249661016147 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1249661016148 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1249661016149 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1249661016150 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1249661016151 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 1249661016152 active site 1249661016153 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1249661016154 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1249661016155 short chain dehydrogenase; Provisional; Region: PRK06197 1249661016156 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1249661016157 putative NAD(P) binding site [chemical binding]; other site 1249661016158 active site 1249661016159 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 1249661016160 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1249661016161 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249661016162 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1249661016163 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 1249661016164 dimerization interface [polypeptide binding]; other site 1249661016165 ligand binding site [chemical binding]; other site 1249661016166 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661016167 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 1249661016168 TM-ABC transporter signature motif; other site 1249661016169 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1249661016170 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1249661016171 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 1249661016172 TM-ABC transporter signature motif; other site 1249661016173 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1249661016174 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1249661016175 Walker A/P-loop; other site 1249661016176 ATP binding site [chemical binding]; other site 1249661016177 Q-loop/lid; other site 1249661016178 ABC transporter signature motif; other site 1249661016179 Walker B; other site 1249661016180 D-loop; other site 1249661016181 H-loop/switch region; other site 1249661016182 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1249661016183 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1249661016184 Walker A/P-loop; other site 1249661016185 ATP binding site [chemical binding]; other site 1249661016186 Q-loop/lid; other site 1249661016187 ABC transporter signature motif; other site 1249661016188 Walker B; other site 1249661016189 D-loop; other site 1249661016190 H-loop/switch region; other site 1249661016191 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1249661016192 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249661016193 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1249661016194 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249661016195 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 1249661016196 catalytic loop [active] 1249661016197 iron binding site [ion binding]; other site 1249661016198 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1249661016199 GAF domain; Region: GAF; pfam01590 1249661016200 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 1249661016201 Walker A motif; other site 1249661016202 ATP binding site [chemical binding]; other site 1249661016203 Walker B motif; other site 1249661016204 arginine finger; other site 1249661016205 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1249661016206 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 1249661016207 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1249661016208 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1249661016209 TIGR02594 family protein; Region: TIGR02594 1249661016210 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1249661016211 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 1249661016212 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 1249661016213 oligomerization interface [polypeptide binding]; other site 1249661016214 active site 1249661016215 metal binding site [ion binding]; metal-binding site 1249661016216 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1249661016217 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1249661016218 short chain dehydrogenase; Validated; Region: PRK05855 1249661016219 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1249661016220 classical (c) SDRs; Region: SDR_c; cd05233 1249661016221 NAD(P) binding site [chemical binding]; other site 1249661016222 active site 1249661016223 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1249661016224 active site 1249661016225 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1249661016226 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 1249661016227 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1249661016228 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1249661016229 active site 1249661016230 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1249661016231 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1249661016232 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661016233 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661016234 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661016235 active site 1249661016236 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1249661016237 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 1249661016238 active site 1249661016239 acyl-activating enzyme (AAE) consensus motif; other site 1249661016240 putative CoA binding site [chemical binding]; other site 1249661016241 AMP binding site [chemical binding]; other site 1249661016242 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1249661016243 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1249661016244 tetrameric interface [polypeptide binding]; other site 1249661016245 NAD binding site [chemical binding]; other site 1249661016246 catalytic residues [active] 1249661016247 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249661016248 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1249661016249 enoyl-CoA hydratase; Provisional; Region: PRK09076 1249661016250 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 1249661016251 substrate binding site [chemical binding]; other site 1249661016252 oxyanion hole (OAH) forming residues; other site 1249661016253 trimer interface [polypeptide binding]; other site 1249661016254 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1249661016255 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 1249661016256 substrate binding site [chemical binding]; other site 1249661016257 oxyanion hole (OAH) forming residues; other site 1249661016258 trimer interface [polypeptide binding]; other site 1249661016259 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1249661016260 Outer membrane efflux protein; Region: OEP; pfam02321 1249661016261 Outer membrane efflux protein; Region: OEP; pfam02321 1249661016262 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1249661016263 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1249661016264 Walker A/P-loop; other site 1249661016265 ATP binding site [chemical binding]; other site 1249661016266 Q-loop/lid; other site 1249661016267 ABC transporter signature motif; other site 1249661016268 Walker B; other site 1249661016269 D-loop; other site 1249661016270 H-loop/switch region; other site 1249661016271 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249661016272 FtsX-like permease family; Region: FtsX; pfam02687 1249661016273 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1249661016274 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661016275 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661016276 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1249661016277 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 1249661016278 active site 1249661016279 dimer interface [polypeptide binding]; other site 1249661016280 non-prolyl cis peptide bond; other site 1249661016281 insertion regions; other site 1249661016282 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1249661016283 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 1249661016284 B1 nucleotide binding pocket [chemical binding]; other site 1249661016285 B2 nucleotide binding pocket [chemical binding]; other site 1249661016286 CAS motifs; other site 1249661016287 active site 1249661016288 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1249661016289 glutaminase; Provisional; Region: PRK00971 1249661016290 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1249661016291 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 1249661016292 Cu(I) binding site [ion binding]; other site 1249661016293 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1249661016294 active site 1249661016295 catalytic triad [active] 1249661016296 calcium binding site [ion binding]; other site 1249661016297 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1249661016298 conserved cys residue [active] 1249661016299 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1249661016300 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1249661016301 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 1249661016302 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249661016303 catalytic residues [active] 1249661016304 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1249661016305 Glutaminase; Region: Glutaminase; cl00907 1249661016306 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1249661016307 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 1249661016308 active site 1249661016309 phosphorylation site [posttranslational modification] 1249661016310 intermolecular recognition site; other site 1249661016311 dimerization interface [polypeptide binding]; other site 1249661016312 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 1249661016313 DNA binding site [nucleotide binding] 1249661016314 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 1249661016315 dimer interface [polypeptide binding]; other site 1249661016316 phosphorylation site [posttranslational modification] 1249661016317 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 1249661016318 ATP binding site [chemical binding]; other site 1249661016319 Mg2+ binding site [ion binding]; other site 1249661016320 G-X-G motif; other site 1249661016321 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1249661016322 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1249661016323 active site 1249661016324 nucleophile elbow; other site 1249661016325 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249661016326 Surface antigen; Region: Bac_surface_Ag; pfam01103 1249661016327 rod shape-determining protein MreB; Provisional; Region: PRK13930 1249661016328 MreB and similar proteins; Region: MreB_like; cd10225 1249661016329 nucleotide binding site [chemical binding]; other site 1249661016330 Mg binding site [ion binding]; other site 1249661016331 putative protofilament interaction site [polypeptide binding]; other site 1249661016332 RodZ interaction site [polypeptide binding]; other site 1249661016333 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1249661016334 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 1249661016335 non-specific DNA binding site [nucleotide binding]; other site 1249661016336 salt bridge; other site 1249661016337 sequence-specific DNA binding site [nucleotide binding]; other site 1249661016338 HD domain; Region: HD_3; pfam13023 1249661016339 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1249661016340 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1249661016341 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 1249661016342 putative dimer interface [polypeptide binding]; other site 1249661016343 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661016344 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249661016345 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 1249661016346 C-terminal domain interface [polypeptide binding]; other site 1249661016347 GSH binding site (G-site) [chemical binding]; other site 1249661016348 dimer interface [polypeptide binding]; other site 1249661016349 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1249661016350 N-terminal domain interface [polypeptide binding]; other site 1249661016351 dimer interface [polypeptide binding]; other site 1249661016352 substrate binding pocket (H-site) [chemical binding]; other site 1249661016353 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1249661016354 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 1249661016355 dimer interface [polypeptide binding]; other site 1249661016356 phosphorylation site [posttranslational modification] 1249661016357 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 1249661016358 ATP binding site [chemical binding]; other site 1249661016359 Mg2+ binding site [ion binding]; other site 1249661016360 G-X-G motif; other site 1249661016361 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1249661016362 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 1249661016363 active site 1249661016364 phosphorylation site [posttranslational modification] 1249661016365 intermolecular recognition site; other site 1249661016366 dimerization interface [polypeptide binding]; other site 1249661016367 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 1249661016368 DNA binding site [nucleotide binding] 1249661016369 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249661016370 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249661016371 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 1249661016372 putative active site [active] 1249661016373 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 1249661016374 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 1249661016375 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 1249661016376 active site residue [active] 1249661016377 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1249661016378 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1249661016379 conserved cys residue [active] 1249661016380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661016381 hypothetical protein; Provisional; Region: PRK07907 1249661016382 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 1249661016383 metal binding site [ion binding]; metal-binding site 1249661016384 putative dimer interface [polypeptide binding]; other site 1249661016385 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1249661016386 NnrU protein; Region: NnrU; pfam07298 1249661016387 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1249661016388 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661016389 Coenzyme A binding pocket [chemical binding]; other site 1249661016390 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1249661016391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1249661016392 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1249661016393 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1249661016394 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661016395 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661016396 putative substrate translocation pore; other site 1249661016397 Trehalase; Region: Trehalase; cl17346 1249661016398 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1249661016399 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1249661016400 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661016401 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 1249661016402 DNA binding residues [nucleotide binding] 1249661016403 dimerization interface [polypeptide binding]; other site 1249661016404 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1249661016405 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1249661016406 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 1249661016407 active site 1249661016408 dimer interface [polypeptide binding]; other site 1249661016409 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 1249661016410 Ligand Binding Site [chemical binding]; other site 1249661016411 Molecular Tunnel; other site 1249661016412 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 1249661016413 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 1249661016414 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661016415 DNA binding site [nucleotide binding] 1249661016416 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1249661016417 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1249661016418 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1249661016419 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1249661016420 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1249661016421 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1249661016422 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 1249661016423 catalytic loop [active] 1249661016424 iron binding site [ion binding]; other site 1249661016425 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1249661016426 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1249661016427 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249661016428 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661016429 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661016430 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 1249661016431 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1249661016432 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1249661016433 Flavin binding site [chemical binding]; other site 1249661016434 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1249661016435 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249661016436 active site 1249661016437 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1249661016438 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 1249661016439 active site 1249661016440 non-prolyl cis peptide bond; other site 1249661016441 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 1249661016442 dimerization interface [polypeptide binding]; other site 1249661016443 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1249661016444 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 1249661016445 dimer interface [polypeptide binding]; other site 1249661016446 phosphorylation site [posttranslational modification] 1249661016447 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 1249661016448 ATP binding site [chemical binding]; other site 1249661016449 Mg2+ binding site [ion binding]; other site 1249661016450 G-X-G motif; other site 1249661016451 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1249661016452 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 1249661016453 active site 1249661016454 phosphorylation site [posttranslational modification] 1249661016455 intermolecular recognition site; other site 1249661016456 dimerization interface [polypeptide binding]; other site 1249661016457 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 1249661016458 DNA binding site [nucleotide binding] 1249661016459 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661016460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661016461 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249661016462 NAD(P) binding site [chemical binding]; other site 1249661016463 active site 1249661016464 MarR family; Region: MarR_2; cl17246 1249661016465 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1249661016466 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1249661016467 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1249661016468 NAD binding site [chemical binding]; other site 1249661016469 catalytic residues [active] 1249661016470 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 1249661016471 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1249661016472 putative active site [active] 1249661016473 putative metal binding site [ion binding]; other site 1249661016474 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 1249661016475 putative substrate binding pocket [chemical binding]; other site 1249661016476 trimer interface [polypeptide binding]; other site 1249661016477 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1249661016478 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1249661016479 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661016480 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 1249661016481 trimer interface [polypeptide binding]; other site 1249661016482 eyelet of channel; other site 1249661016483 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1249661016484 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249661016485 Walker A/P-loop; other site 1249661016486 ATP binding site [chemical binding]; other site 1249661016487 Q-loop/lid; other site 1249661016488 ABC transporter signature motif; other site 1249661016489 Walker B; other site 1249661016490 D-loop; other site 1249661016491 H-loop/switch region; other site 1249661016492 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249661016493 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 1249661016494 dimer interface [polypeptide binding]; other site 1249661016495 conserved gate region; other site 1249661016496 ABC-ATPase subunit interface; other site 1249661016497 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 1249661016498 dimer interface [polypeptide binding]; other site 1249661016499 conserved gate region; other site 1249661016500 putative PBP binding loops; other site 1249661016501 ABC-ATPase subunit interface; other site 1249661016502 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249661016503 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1249661016504 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1249661016505 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 1249661016506 active site 1249661016507 phosphorylation site [posttranslational modification] 1249661016508 intermolecular recognition site; other site 1249661016509 dimerization interface [polypeptide binding]; other site 1249661016510 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 1249661016511 DNA binding site [nucleotide binding] 1249661016512 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1249661016513 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 1249661016514 dimer interface [polypeptide binding]; other site 1249661016515 phosphorylation site [posttranslational modification] 1249661016516 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 1249661016517 ATP binding site [chemical binding]; other site 1249661016518 Mg2+ binding site [ion binding]; other site 1249661016519 G-X-G motif; other site 1249661016520 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1249661016521 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1249661016522 MOSC domain; Region: MOSC; pfam03473 1249661016523 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1249661016524 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 1249661016525 membrane-bound complex binding site; other site 1249661016526 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1249661016527 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1249661016528 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1249661016529 Walker A/P-loop; other site 1249661016530 ATP binding site [chemical binding]; other site 1249661016531 Q-loop/lid; other site 1249661016532 ABC transporter signature motif; other site 1249661016533 Walker B; other site 1249661016534 D-loop; other site 1249661016535 H-loop/switch region; other site 1249661016536 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1249661016537 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 1249661016538 dimer interface [polypeptide binding]; other site 1249661016539 conserved gate region; other site 1249661016540 putative PBP binding loops; other site 1249661016541 ABC-ATPase subunit interface; other site 1249661016542 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 1249661016543 NMT1/THI5 like; Region: NMT1; pfam09084 1249661016544 hypothetical protein; Provisional; Region: PRK06208 1249661016545 intersubunit interface [polypeptide binding]; other site 1249661016546 active site 1249661016547 Zn2+ binding site [ion binding]; other site 1249661016548 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 1249661016549 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1249661016550 dimer interface [polypeptide binding]; other site 1249661016551 active site 1249661016552 non-prolyl cis peptide bond; other site 1249661016553 insertion regions; other site 1249661016554 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249661016555 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1249661016556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661016557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661016558 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1249661016559 dimerization interface [polypeptide binding]; other site 1249661016560 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1249661016561 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 1249661016562 active site residue [active] 1249661016563 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 1249661016564 active site residue [active] 1249661016565 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 1249661016566 active site residue [active] 1249661016567 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 1249661016568 active site residue [active] 1249661016569 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661016570 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 1249661016571 trimer interface [polypeptide binding]; other site 1249661016572 eyelet of channel; other site 1249661016573 Isochorismatase family; Region: Isochorismatase; pfam00857 1249661016574 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 1249661016575 catalytic triad [active] 1249661016576 conserved cis-peptide bond; other site 1249661016577 enoyl-CoA hydratase; Validated; Region: PRK08139 1249661016578 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 1249661016579 substrate binding site [chemical binding]; other site 1249661016580 oxyanion hole (OAH) forming residues; other site 1249661016581 trimer interface [polypeptide binding]; other site 1249661016582 alanine racemase; Reviewed; Region: PRK13340 1249661016583 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1249661016584 active site 1249661016585 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249661016586 substrate binding site [chemical binding]; other site 1249661016587 catalytic residues [active] 1249661016588 dimer interface [polypeptide binding]; other site 1249661016589 Domain of unknown function (DUF427); Region: DUF427; pfam04248 1249661016590 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1249661016591 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1249661016592 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1249661016593 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1249661016594 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1249661016595 MASE1; Region: MASE1; pfam05231 1249661016596 PAS fold; Region: PAS_3; pfam08447 1249661016597 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661016598 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661016599 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1249661016600 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1249661016601 potential catalytic triad [active] 1249661016602 conserved cys residue [active] 1249661016603 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1249661016604 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 1249661016605 active site 1249661016606 FMN binding site [chemical binding]; other site 1249661016607 substrate binding site [chemical binding]; other site 1249661016608 homotetramer interface [polypeptide binding]; other site 1249661016609 catalytic residue [active] 1249661016610 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 1249661016611 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1249661016612 NAD binding site [chemical binding]; other site 1249661016613 homotetramer interface [polypeptide binding]; other site 1249661016614 homodimer interface [polypeptide binding]; other site 1249661016615 substrate binding site [chemical binding]; other site 1249661016616 active site 1249661016617 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1249661016618 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1249661016619 short chain dehydrogenase; Provisional; Region: PRK06523 1249661016620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661016621 NAD(P) binding site [chemical binding]; other site 1249661016622 active site 1249661016623 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 1249661016624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661016625 DNA-binding site [nucleotide binding]; DNA binding site 1249661016626 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 1249661016627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661016628 homodimer interface [polypeptide binding]; other site 1249661016629 catalytic residue [active] 1249661016630 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1249661016631 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1249661016632 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 1249661016633 dimer interface [polypeptide binding]; other site 1249661016634 phosphorylation site [posttranslational modification] 1249661016635 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 1249661016636 ATP binding site [chemical binding]; other site 1249661016637 Mg2+ binding site [ion binding]; other site 1249661016638 G-X-G motif; other site 1249661016639 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1249661016640 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 1249661016641 active site 1249661016642 phosphorylation site [posttranslational modification] 1249661016643 intermolecular recognition site; other site 1249661016644 dimerization interface [polypeptide binding]; other site 1249661016645 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 1249661016646 DNA binding site [nucleotide binding] 1249661016647 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661016648 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1249661016649 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249661016650 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661016651 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1249661016652 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1249661016653 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 1249661016654 ligand binding site [chemical binding]; other site 1249661016655 flexible hinge region; other site 1249661016656 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1249661016657 acyl-CoA synthetase; Validated; Region: PRK08162 1249661016658 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1249661016659 acyl-activating enzyme (AAE) consensus motif; other site 1249661016660 putative active site [active] 1249661016661 AMP binding site [chemical binding]; other site 1249661016662 putative CoA binding site [chemical binding]; other site 1249661016663 Cache domain; Region: Cache_1; pfam02743 1249661016664 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661016665 dimer interface [polypeptide binding]; other site 1249661016666 putative CheW interface [polypeptide binding]; other site 1249661016667 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1249661016668 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1249661016669 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1249661016670 DXD motif; other site 1249661016671 PilZ domain; Region: PilZ; pfam07238 1249661016672 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1249661016673 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661016674 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1249661016675 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1249661016676 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1249661016677 putative phosphoesterase; Region: acc_ester; TIGR03729 1249661016678 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1249661016679 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661016680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661016681 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 1249661016682 dimerization interface [polypeptide binding]; other site 1249661016683 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1249661016684 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 1249661016685 inhibitor-cofactor binding pocket; inhibition site 1249661016686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661016687 catalytic residue [active] 1249661016688 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1249661016689 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1249661016690 tetrameric interface [polypeptide binding]; other site 1249661016691 NAD binding site [chemical binding]; other site 1249661016692 catalytic residues [active] 1249661016693 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1249661016694 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1249661016695 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661016696 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 1249661016697 DNA binding residues [nucleotide binding] 1249661016698 dimerization interface [polypeptide binding]; other site 1249661016699 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1249661016700 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 1249661016701 homodimer interface [polypeptide binding]; other site 1249661016702 homotetramer interface [polypeptide binding]; other site 1249661016703 active site pocket [active] 1249661016704 cleavage site 1249661016705 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1249661016706 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1249661016707 transcriptional regulator; Provisional; Region: PRK10632 1249661016708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661016709 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 1249661016710 putative effector binding pocket; other site 1249661016711 dimerization interface [polypeptide binding]; other site 1249661016712 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1249661016713 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661016714 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 1249661016715 trimer interface [polypeptide binding]; other site 1249661016716 eyelet of channel; other site 1249661016717 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 1249661016718 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249661016719 cytosine permease; Provisional; Region: codB; PRK11017 1249661016720 Na binding site [ion binding]; other site 1249661016721 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1249661016722 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1249661016723 cytosine deaminase; Provisional; Region: PRK09230 1249661016724 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 1249661016725 active site 1249661016726 H-type lectin domain; Region: H_lectin; pfam09458 1249661016727 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1249661016728 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1249661016729 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1249661016730 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1249661016731 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1249661016732 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661016733 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 1249661016734 active site 1249661016735 phosphorylation site [posttranslational modification] 1249661016736 intermolecular recognition site; other site 1249661016737 dimerization interface [polypeptide binding]; other site 1249661016738 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 1249661016739 DNA binding residues [nucleotide binding] 1249661016740 dimerization interface [polypeptide binding]; other site 1249661016741 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1249661016742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661016743 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1249661016744 putative dimerization interface [polypeptide binding]; other site 1249661016745 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1249661016746 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1249661016747 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1249661016748 dimer interface [polypeptide binding]; other site 1249661016749 NADP binding site [chemical binding]; other site 1249661016750 catalytic residues [active] 1249661016751 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1249661016752 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661016753 putative substrate translocation pore; other site 1249661016754 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661016755 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1249661016756 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1249661016757 active site 1249661016758 inhibitor site; inhibition site 1249661016759 dimer interface [polypeptide binding]; other site 1249661016760 catalytic residue [active] 1249661016761 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1249661016762 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249661016763 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1249661016764 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 1249661016765 ligand binding site [chemical binding]; other site 1249661016766 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 1249661016767 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661016768 Walker A/P-loop; other site 1249661016769 ATP binding site [chemical binding]; other site 1249661016770 Q-loop/lid; other site 1249661016771 ABC transporter signature motif; other site 1249661016772 Walker B; other site 1249661016773 D-loop; other site 1249661016774 H-loop/switch region; other site 1249661016775 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661016776 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661016777 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 1249661016778 TM-ABC transporter signature motif; other site 1249661016779 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1249661016780 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1249661016781 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1249661016782 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1249661016783 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 1249661016784 N-terminal plug; other site 1249661016785 ligand-binding site [chemical binding]; other site 1249661016786 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1249661016787 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1249661016788 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249661016789 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 1249661016790 dimer interface [polypeptide binding]; other site 1249661016791 phosphorylation site [posttranslational modification] 1249661016792 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 1249661016793 ATP binding site [chemical binding]; other site 1249661016794 Mg2+ binding site [ion binding]; other site 1249661016795 G-X-G motif; other site 1249661016796 Response regulator receiver domain; Region: Response_reg; pfam00072 1249661016797 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 1249661016798 active site 1249661016799 phosphorylation site [posttranslational modification] 1249661016800 intermolecular recognition site; other site 1249661016801 dimerization interface [polypeptide binding]; other site 1249661016802 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661016803 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661016804 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249661016805 YadA-like C-terminal region; Region: YadA; pfam03895 1249661016806 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661016807 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1249661016808 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 1249661016809 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249661016810 ligand binding site [chemical binding]; other site 1249661016811 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249661016812 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661016813 Walker A/P-loop; other site 1249661016814 ATP binding site [chemical binding]; other site 1249661016815 Q-loop/lid; other site 1249661016816 ABC transporter signature motif; other site 1249661016817 Walker B; other site 1249661016818 D-loop; other site 1249661016819 H-loop/switch region; other site 1249661016820 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661016821 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 1249661016822 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661016823 TM-ABC transporter signature motif; other site 1249661016824 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1249661016825 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1249661016826 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1249661016827 Amidohydrolase; Region: Amidohydro_2; pfam04909 1249661016828 active site 1249661016829 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1249661016830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661016831 NAD(P) binding site [chemical binding]; other site 1249661016832 active site 1249661016833 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 1249661016834 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1249661016835 short chain dehydrogenase; Provisional; Region: PRK08628 1249661016836 classical (c) SDRs; Region: SDR_c; cd05233 1249661016837 NAD(P) binding site [chemical binding]; other site 1249661016838 active site 1249661016839 Domain of unknown function (DUF718); Region: DUF718; cl01281 1249661016840 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1249661016841 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 1249661016842 dimerization interface [polypeptide binding]; other site 1249661016843 ligand binding site [chemical binding]; other site 1249661016844 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1249661016845 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1249661016846 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661016847 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 1249661016848 putative DNA binding site [nucleotide binding]; other site 1249661016849 putative Zn2+ binding site [ion binding]; other site 1249661016850 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661016851 aromatic amino acid transporter; Provisional; Region: PRK10238 1249661016852 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1249661016853 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 1249661016854 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661016855 homodimer interface [polypeptide binding]; other site 1249661016856 catalytic residue [active] 1249661016857 Protein of unknown function, DUF488; Region: DUF488; cl01246 1249661016858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661016859 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1249661016860 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1249661016861 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1249661016862 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1249661016863 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1249661016864 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1249661016865 Walker A/P-loop; other site 1249661016866 ATP binding site [chemical binding]; other site 1249661016867 Q-loop/lid; other site 1249661016868 ABC transporter signature motif; other site 1249661016869 Walker B; other site 1249661016870 D-loop; other site 1249661016871 H-loop/switch region; other site 1249661016872 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1249661016873 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661016874 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249661016875 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249661016876 PAS domain; Region: PAS_9; pfam13426 1249661016877 Transglycosylase; Region: Transgly; pfam00912 1249661016878 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249661016879 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1249661016880 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1249661016881 MG2 domain; Region: A2M_N; pfam01835 1249661016882 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1249661016883 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1249661016884 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1249661016885 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 1249661016886 putative active site pocket [active] 1249661016887 dimerization interface [polypeptide binding]; other site 1249661016888 putative catalytic residue [active] 1249661016889 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249661016890 active site 1249661016891 HIGH motif; other site 1249661016892 nucleotide binding site [chemical binding]; other site 1249661016893 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249661016894 active site 1249661016895 KMSKS motif; other site 1249661016896 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1249661016897 tRNA binding surface [nucleotide binding]; other site 1249661016898 anticodon binding site; other site 1249661016899 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 1249661016900 S-adenosylmethionine binding site [chemical binding]; other site 1249661016901 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 1249661016902 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1249661016903 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1249661016904 active site 1249661016905 iron coordination sites [ion binding]; other site 1249661016906 substrate binding pocket [chemical binding]; other site 1249661016907 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 1249661016908 S-adenosylmethionine binding site [chemical binding]; other site 1249661016909 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1249661016910 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 1249661016911 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249661016912 catalytic residue [active] 1249661016913 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 1249661016914 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1249661016915 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1249661016916 putative monooxygenase; Reviewed; Region: PRK07045 1249661016917 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249661016918 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1249661016919 sequence-specific DNA binding site [nucleotide binding]; other site 1249661016920 salt bridge; other site 1249661016921 Cupin domain; Region: Cupin_2; pfam07883 1249661016922 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 1249661016923 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1249661016924 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661016925 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 1249661016926 active site 1249661016927 phosphorylation site [posttranslational modification] 1249661016928 intermolecular recognition site; other site 1249661016929 dimerization interface [polypeptide binding]; other site 1249661016930 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 1249661016931 DNA binding residues [nucleotide binding] 1249661016932 dimerization interface [polypeptide binding]; other site 1249661016933 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 1249661016934 Ligand Binding Site [chemical binding]; other site 1249661016935 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 1249661016936 Ligand Binding Site [chemical binding]; other site 1249661016937 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 1249661016938 Ligand Binding Site [chemical binding]; other site 1249661016939 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 1249661016940 Ligand Binding Site [chemical binding]; other site 1249661016941 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 1249661016942 Ligand Binding Site [chemical binding]; other site 1249661016943 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 1249661016944 Ligand Binding Site [chemical binding]; other site 1249661016945 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 1249661016946 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1249661016947 catalytic Zn binding site [ion binding]; other site 1249661016948 structural Zn binding site [ion binding]; other site 1249661016949 NAD(P) binding site [chemical binding]; other site 1249661016950 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1249661016951 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 1249661016952 active site residue [active] 1249661016953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661016954 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249661016955 putative substrate translocation pore; other site 1249661016956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661016957 NAD(P) binding site [chemical binding]; other site 1249661016958 active site 1249661016959 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 1249661016960 sequence-specific DNA binding site [nucleotide binding]; other site 1249661016961 salt bridge; other site 1249661016962 H-NS histone family; Region: Histone_HNS; pfam00816 1249661016963 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1249661016964 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1249661016965 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1249661016966 Flavin binding site [chemical binding]; other site 1249661016967 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1249661016968 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1249661016969 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 1249661016970 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 1249661016971 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1249661016972 active site 1249661016973 non-prolyl cis peptide bond; other site 1249661016974 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 1249661016975 active site 1249661016976 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249661016977 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 1249661016978 substrate binding site [chemical binding]; other site 1249661016979 dimer interface [polypeptide binding]; other site 1249661016980 ATP binding site [chemical binding]; other site 1249661016981 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1249661016982 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1249661016983 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1249661016984 DEAD_2; Region: DEAD_2; pfam06733 1249661016985 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1249661016986 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249661016987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661016988 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 1249661016989 dimerization interface [polypeptide binding]; other site 1249661016990 substrate binding pocket [chemical binding]; other site 1249661016991 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 1249661016992 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1249661016993 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1249661016994 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1249661016995 transcriptional regulator; Provisional; Region: PRK10632 1249661016996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661016997 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 1249661016998 putative effector binding pocket; other site 1249661016999 dimerization interface [polypeptide binding]; other site 1249661017000 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1249661017001 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1249661017002 catalytic residues [active] 1249661017003 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1249661017004 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1249661017005 putative NAD(P) binding site [chemical binding]; other site 1249661017006 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661017007 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661017008 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 1249661017009 putative effector binding pocket; other site 1249661017010 putative dimerization interface [polypeptide binding]; other site 1249661017011 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 1249661017012 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1249661017013 active site 1249661017014 catalytic tetrad [active] 1249661017015 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 1249661017016 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1249661017017 classical (c) SDRs; Region: SDR_c; cd05233 1249661017018 NAD(P) binding site [chemical binding]; other site 1249661017019 active site 1249661017020 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249661017021 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 1249661017022 DNA binding residues [nucleotide binding] 1249661017023 dimerization interface [polypeptide binding]; other site 1249661017024 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1249661017025 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249661017026 NAD(P) binding site [chemical binding]; other site 1249661017027 catalytic residues [active] 1249661017028 hypothetical protein; Provisional; Region: PRK07481 1249661017029 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 1249661017030 inhibitor-cofactor binding pocket; inhibition site 1249661017031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661017032 catalytic residue [active] 1249661017033 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1249661017034 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 1249661017035 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661017036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661017037 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 1249661017038 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661017039 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249661017040 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1249661017041 Coenzyme A binding pocket [chemical binding]; other site 1249661017042 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1249661017043 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 1249661017044 FMN binding site [chemical binding]; other site 1249661017045 active site 1249661017046 substrate binding site [chemical binding]; other site 1249661017047 catalytic residue [active] 1249661017048 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 1249661017049 putative DNA binding site [nucleotide binding]; other site 1249661017050 dimerization interface [polypeptide binding]; other site 1249661017051 putative Zn2+ binding site [ion binding]; other site 1249661017052 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661017053 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 1249661017054 trimer interface [polypeptide binding]; other site 1249661017055 eyelet of channel; other site 1249661017056 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1249661017057 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1249661017058 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1249661017059 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 1249661017060 FOG: CBS domain [General function prediction only]; Region: COG0517 1249661017061 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 1249661017062 dimerization interface [polypeptide binding]; other site 1249661017063 active site 1249661017064 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 1249661017065 NADH/NADPH cofactor binding site [chemical binding]; other site 1249661017066 Autoinducer synthetase; Region: Autoind_synth; cl17404 1249661017067 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1249661017068 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1249661017069 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 1249661017070 DNA binding residues [nucleotide binding] 1249661017071 dimerization interface [polypeptide binding]; other site 1249661017072 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1249661017073 MgtC family; Region: MgtC; pfam02308 1249661017074 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1249661017075 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249661017076 putative active site [active] 1249661017077 putative metal binding site [ion binding]; other site 1249661017078 Nitroreductase-like family 5. 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_5; cd02148 1249661017079 putative FMN binding site [chemical binding]; other site 1249661017080 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1249661017081 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249661017082 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661017083 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661017084 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661017085 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 1249661017086 trimer interface [polypeptide binding]; other site 1249661017087 eyelet of channel; other site 1249661017088 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 1249661017089 [2Fe-2S] cluster binding site [ion binding]; other site 1249661017090 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1249661017091 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 1249661017092 [2Fe-2S] cluster binding site [ion binding]; other site 1249661017093 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1249661017094 hydrophobic ligand binding site; other site 1249661017095 short chain dehydrogenase; Provisional; Region: PRK12939 1249661017096 classical (c) SDRs; Region: SDR_c; cd05233 1249661017097 NAD(P) binding site [chemical binding]; other site 1249661017098 active site 1249661017099 Cupin domain; Region: Cupin_2; pfam07883 1249661017100 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249661017101 Serine hydrolase; Region: Ser_hydrolase; cl17834 1249661017102 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249661017103 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249661017104 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249661017105 short chain dehydrogenase; Provisional; Region: PRK07062 1249661017106 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1249661017107 putative NAD(P) binding site [chemical binding]; other site 1249661017108 putative active site [active] 1249661017109 hypothetical protein; Provisional; Region: PRK07064 1249661017110 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249661017111 PYR/PP interface [polypeptide binding]; other site 1249661017112 dimer interface [polypeptide binding]; other site 1249661017113 TPP binding site [chemical binding]; other site 1249661017114 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249661017115 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 1249661017116 TPP-binding site [chemical binding]; other site 1249661017117 L-aspartate dehydrogenase; Provisional; Region: PRK13303 1249661017118 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1249661017119 Domain of unknown function DUF108; Region: DUF108; pfam01958 1249661017120 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249661017121 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1249661017122 NAD(P) binding site [chemical binding]; other site 1249661017123 catalytic residues [active] 1249661017124 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1249661017125 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 1249661017126 active site 1249661017127 metal binding site [ion binding]; metal-binding site 1249661017128 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 1249661017129 putative active site [active] 1249661017130 putative metal binding site [ion binding]; other site 1249661017131 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1249661017132 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249661017133 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249661017134 benzoate transport; Region: 2A0115; TIGR00895 1249661017135 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661017136 putative substrate translocation pore; other site 1249661017137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661017138 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249661017139 trimer interface [polypeptide binding]; other site 1249661017140 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249661017141 trimer interface [polypeptide binding]; other site 1249661017142 Haemagglutinin; Region: HIM; pfam05662 1249661017143 Haemagglutinin; Region: HIM; pfam05662 1249661017144 Haemagglutinin; Region: HIM; pfam05662 1249661017145 YadA-like C-terminal region; Region: YadA; pfam03895 1249661017146 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1249661017147 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1249661017148 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249661017149 ligand binding site [chemical binding]; other site 1249661017150 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 1249661017151 Ligand Binding Site [chemical binding]; other site 1249661017152 amidase; Provisional; Region: PRK07486 1249661017153 Amidase; Region: Amidase; pfam01425 1249661017154 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1249661017155 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 1249661017156 dimerization interface [polypeptide binding]; other site 1249661017157 putative DNA binding site [nucleotide binding]; other site 1249661017158 putative Zn2+ binding site [ion binding]; other site 1249661017159 AsnC family; Region: AsnC_trans_reg; pfam01037 1249661017160 methionine gamma-lyase; Validated; Region: PRK07049 1249661017161 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 1249661017162 homodimer interface [polypeptide binding]; other site 1249661017163 substrate-cofactor binding pocket; other site 1249661017164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661017165 catalytic residue [active] 1249661017166 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 1249661017167 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 1249661017168 amidase; Provisional; Region: PRK07869 1249661017169 Amidase; Region: Amidase; cl11426 1249661017170 LysR family transcriptional regulator; Provisional; Region: PRK14997 1249661017171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661017172 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 1249661017173 putative effector binding pocket; other site 1249661017174 dimerization interface [polypeptide binding]; other site 1249661017175 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1249661017176 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1249661017177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249661017178 short chain dehydrogenase; Provisional; Region: PRK07832 1249661017179 NAD(P) binding site [chemical binding]; other site 1249661017180 active site 1249661017181 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1249661017182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1249661017183 YhhN-like protein; Region: YhhN; pfam07947 1249661017184 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1249661017185 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 1249661017186 substrate binding pocket [chemical binding]; other site 1249661017187 membrane-bound complex binding site; other site 1249661017188 hinge residues; other site 1249661017189 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 1249661017190 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1249661017191 DNA binding residues [nucleotide binding] 1249661017192 putative dimer interface [polypeptide binding]; other site 1249661017193 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1249661017194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249661017195 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249661017196 Coenzyme A binding pocket [chemical binding]; other site 1249661017197 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661017198 putative substrate translocation pore; other site 1249661017199 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661017200 putative substrate translocation pore; other site 1249661017201 Tar ligand binding domain homologue; Region: TarH; pfam02203 1249661017202 dimer interface [polypeptide binding]; other site 1249661017203 ligand binding site [chemical binding]; other site 1249661017204 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 1249661017205 dimerization interface [polypeptide binding]; other site 1249661017206 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1249661017207 dimer interface [polypeptide binding]; other site 1249661017208 putative CheW interface [polypeptide binding]; other site 1249661017209 Part of AAA domain; Region: AAA_19; pfam13245 1249661017210 Family description; Region: UvrD_C_2; pfam13538 1249661017211 BetR domain; Region: BetR; pfam08667 1249661017212 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 1249661017213 active site 1249661017214 phosphorylation site [posttranslational modification] 1249661017215 intermolecular recognition site; other site 1249661017216 dimerization interface [polypeptide binding]; other site 1249661017217 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1249661017218 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1249661017219 Ion channel; Region: Ion_trans_2; pfam07885 1249661017220 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1249661017221 TrkA-N domain; Region: TrkA_N; pfam02254 1249661017222 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1249661017223 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1249661017224 ornithine cyclodeaminase; Validated; Region: PRK07340 1249661017225 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1249661017226 Putative esterase; Region: Esterase; pfam00756 1249661017227 OpgC protein; Region: OpgC_C; pfam10129 1249661017228 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661017229 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 1249661017230 trimer interface [polypeptide binding]; other site 1249661017231 eyelet of channel; other site 1249661017232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661017233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661017234 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 1249661017235 putative dimerization interface [polypeptide binding]; other site 1249661017236 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249661017237 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249661017238 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1249661017239 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249661017240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661017241 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 1249661017242 substrate binding pocket [chemical binding]; other site 1249661017243 dimerization interface [polypeptide binding]; other site 1249661017244 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1249661017245 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661017246 Walker A/P-loop; other site 1249661017247 ATP binding site [chemical binding]; other site 1249661017248 Q-loop/lid; other site 1249661017249 ABC transporter signature motif; other site 1249661017250 Walker B; other site 1249661017251 D-loop; other site 1249661017252 H-loop/switch region; other site 1249661017253 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1249661017254 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249661017255 Walker A/P-loop; other site 1249661017256 ATP binding site [chemical binding]; other site 1249661017257 Q-loop/lid; other site 1249661017258 ABC transporter signature motif; other site 1249661017259 Walker B; other site 1249661017260 D-loop; other site 1249661017261 H-loop/switch region; other site 1249661017262 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1249661017263 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 1249661017264 dimer interface [polypeptide binding]; other site 1249661017265 conserved gate region; other site 1249661017266 putative PBP binding loops; other site 1249661017267 ABC-ATPase subunit interface; other site 1249661017268 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1249661017269 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 1249661017270 dimer interface [polypeptide binding]; other site 1249661017271 conserved gate region; other site 1249661017272 putative PBP binding loops; other site 1249661017273 ABC-ATPase subunit interface; other site 1249661017274 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 1249661017275 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1249661017276 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 1249661017277 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249661017278 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249661017279 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1249661017280 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1249661017281 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1249661017282 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249661017283 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1249661017284 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1249661017285 PAAR motif; Region: PAAR_motif; pfam05488 1249661017286 RHS Repeat; Region: RHS_repeat; cl11982 1249661017287 RHS Repeat; Region: RHS_repeat; pfam05593 1249661017288 RHS Repeat; Region: RHS_repeat; pfam05593 1249661017289 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1249661017290 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1249661017291 RHS Repeat; Region: RHS_repeat; pfam05593 1249661017292 RHS Repeat; Region: RHS_repeat; pfam05593 1249661017293 RHS Repeat; Region: RHS_repeat; pfam05593 1249661017294 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1249661017295 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1249661017296 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249661017297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661017298 Walker A/P-loop; other site 1249661017299 ATP binding site [chemical binding]; other site 1249661017300 Q-loop/lid; other site 1249661017301 ABC transporter signature motif; other site 1249661017302 Walker B; other site 1249661017303 D-loop; other site 1249661017304 H-loop/switch region; other site 1249661017305 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249661017306 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 1249661017307 ABC-ATPase subunit interface; other site 1249661017308 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1249661017309 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249661017310 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1249661017311 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 1249661017312 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1249661017313 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249661017314 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 1249661017315 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 1249661017316 Cupin; Region: Cupin_1; smart00835 1249661017317 Cupin; Region: Cupin_1; smart00835 1249661017318 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1249661017319 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1249661017320 yiaA/B two helix domain; Region: YiaAB; pfam05360 1249661017321 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1249661017322 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1249661017323 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 1249661017324 putative molybdopterin cofactor binding site [chemical binding]; other site 1249661017325 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 1249661017326 putative molybdopterin cofactor binding site; other site 1249661017327 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 1249661017328 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249661017329 DNA-binding site [nucleotide binding]; DNA binding site 1249661017330 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 1249661017331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661017332 homodimer interface [polypeptide binding]; other site 1249661017333 catalytic residue [active] 1249661017334 magnesium-transporting ATPase; Provisional; Region: PRK15122 1249661017335 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1249661017336 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1249661017337 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1249661017338 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1249661017339 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1249661017340 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1249661017341 active site 1249661017342 catalytic triad [active] 1249661017343 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 1249661017344 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1249661017345 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1249661017346 Cytochrome c; Region: Cytochrom_C; pfam00034 1249661017347 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661017348 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1249661017349 Cytochrome c; Region: Cytochrom_C; pfam00034 1249661017350 Predicted membrane protein [Function unknown]; Region: COG2259 1249661017351 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249661017352 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 1249661017353 trimer interface [polypeptide binding]; other site 1249661017354 eyelet of channel; other site 1249661017355 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661017356 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 1249661017357 dimer interface [polypeptide binding]; other site 1249661017358 conserved gate region; other site 1249661017359 putative PBP binding loops; other site 1249661017360 ABC-ATPase subunit interface; other site 1249661017361 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249661017362 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 1249661017363 dimer interface [polypeptide binding]; other site 1249661017364 conserved gate region; other site 1249661017365 putative PBP binding loops; other site 1249661017366 ABC-ATPase subunit interface; other site 1249661017367 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1249661017368 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1249661017369 Walker A/P-loop; other site 1249661017370 ATP binding site [chemical binding]; other site 1249661017371 Q-loop/lid; other site 1249661017372 ABC transporter signature motif; other site 1249661017373 Walker B; other site 1249661017374 D-loop; other site 1249661017375 H-loop/switch region; other site 1249661017376 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 1249661017377 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1249661017378 putative active site [active] 1249661017379 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1249661017380 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249661017381 putative substrate translocation pore; other site 1249661017382 FtsX-like permease family; Region: FtsX; pfam02687 1249661017383 Histidine kinase; Region: His_kinase; pfam06580 1249661017384 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 1249661017385 ATP binding site [chemical binding]; other site 1249661017386 Mg2+ binding site [ion binding]; other site 1249661017387 G-X-G motif; other site 1249661017388 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1249661017389 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 1249661017390 active site 1249661017391 phosphorylation site [posttranslational modification] 1249661017392 intermolecular recognition site; other site 1249661017393 dimerization interface [polypeptide binding]; other site 1249661017394 LytTr DNA-binding domain; Region: LytTR; smart00850 1249661017395 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 1249661017396 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249661017397 S-adenosylmethionine binding site [chemical binding]; other site 1249661017398 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 1249661017399 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1249661017400 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 1249661017401 Cl- selectivity filter; other site 1249661017402 Cl- binding residues [ion binding]; other site 1249661017403 pore gating glutamate residue; other site 1249661017404 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 1249661017405 FOG: CBS domain [General function prediction only]; Region: COG0517 1249661017406 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 1249661017407 MarR family; Region: MarR_2; pfam12802 1249661017408 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1249661017409 HPP family; Region: HPP; pfam04982 1249661017410 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 1249661017411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249661017412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249661017413 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 1249661017414 putative effector binding pocket; other site 1249661017415 dimerization interface [polypeptide binding]; other site 1249661017416 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1249661017417 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 1249661017418 nudix motif; other site 1249661017419 MarC family integral membrane protein; Region: MarC; cl00919 1249661017420 RNA polymerase sigma factor; Provisional; Region: PRK12512 1249661017421 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661017422 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 1249661017423 DNA binding residues [nucleotide binding] 1249661017424 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1249661017425 hypothetical protein; Provisional; Region: PRK05409 1249661017426 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1249661017427 Predicted membrane protein [Function unknown]; Region: COG2259 1249661017428 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 1249661017429 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1249661017430 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249661017431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249661017432 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1249661017433 RNA polymerase sigma factor; Provisional; Region: PRK12547 1249661017434 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661017435 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 1249661017436 DNA binding residues [nucleotide binding] 1249661017437 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1249661017438 YceI-like domain; Region: YceI; pfam04264 1249661017439 YceI-like domain; Region: YceI; cl01001 1249661017440 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1249661017441 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1249661017442 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1249661017443 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1249661017444 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1249661017445 RNA polymerase sigma factor; Provisional; Region: PRK12528 1249661017446 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249661017447 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 1249661017448 DNA binding residues [nucleotide binding] 1249661017449 fec operon regulator FecR; Reviewed; Region: PRK09774 1249661017450 FecR protein; Region: FecR; pfam04773 1249661017451 Secretin and TonB N terminus short domain; Region: STN; smart00965 1249661017452 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1249661017453 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 1249661017454 N-terminal plug; other site 1249661017455 ligand-binding site [chemical binding]; other site 1249661017456 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249661017457 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 1249661017458 TM-ABC transporter signature motif; other site 1249661017459 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 1249661017460 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1249661017461 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249661017462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249661017463 Walker A/P-loop; other site 1249661017464 ATP binding site [chemical binding]; other site 1249661017465 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249661017466 ABC transporter signature motif; other site 1249661017467 Walker B; other site 1249661017468 D-loop; other site 1249661017469 H-loop/switch region; other site 1249661017470 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249661017471 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1249661017472 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249661017473 putative ligand binding site [chemical binding]; other site 1249661017474 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1249661017475 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1249661017476 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1249661017477 Flavin binding site [chemical binding]; other site 1249661017478 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1249661017479 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1249661017480 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 1249661017481 dimerization interface [polypeptide binding]; other site 1249661017482 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 1249661017483 dimer interface [polypeptide binding]; other site 1249661017484 phosphorylation site [posttranslational modification] 1249661017485 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 1249661017486 ATP binding site [chemical binding]; other site 1249661017487 Mg2+ binding site [ion binding]; other site 1249661017488 G-X-G motif; other site 1249661017489 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1249661017490 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 1249661017491 active site 1249661017492 phosphorylation site [posttranslational modification] 1249661017493 intermolecular recognition site; other site 1249661017494 dimerization interface [polypeptide binding]; other site 1249661017495 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 1249661017496 DNA binding site [nucleotide binding] 1249661017497 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1249661017498 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1249661017499 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249661017500 Outer membrane efflux protein; Region: OEP; pfam02321 1249661017501 Outer membrane efflux protein; Region: OEP; pfam02321 1249661017502 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1249661017503 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 1249661017504 Catalytic site [active] 1249661017505 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 1249661017506 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 1249661017507 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1249661017508 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 1249661017509 dimer interface [polypeptide binding]; other site 1249661017510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249661017511 catalytic residue [active] 1249661017512 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 1249661017513 putative deacylase active site [active] 1249661017514 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249661017515 Winged helix-turn helix; Region: HTH_29; pfam13551 1249661017516 Homeodomain-like domain; Region: HTH_32; pfam13565 1249661017517 Integrase core domain; Region: rve; pfam00665