-- dump date 20140619_011503 -- class Genbank::misc_feature -- table misc_feature_note -- id note 204722000001 replication initiation protein RepC; Provisional; Region: PRK13824 204722000002 Replication protein C N-terminal domain; Region: RP-C; pfam03428 204722000003 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 204722000004 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 204722000005 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 204722000006 substrate binding site [chemical binding]; other site 204722000007 dimer interface [polypeptide binding]; other site 204722000008 ATP binding site [chemical binding]; other site 204722000009 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 204722000010 active site 204722000011 tetramer interface [polypeptide binding]; other site 204722000012 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 204722000013 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 204722000014 TM-ABC transporter signature motif; other site 204722000015 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722000016 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 204722000017 TM-ABC transporter signature motif; other site 204722000018 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 204722000019 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 204722000020 Walker A/P-loop; other site 204722000021 ATP binding site [chemical binding]; other site 204722000022 Q-loop/lid; other site 204722000023 ABC transporter signature motif; other site 204722000024 Walker B; other site 204722000025 D-loop; other site 204722000026 H-loop/switch region; other site 204722000027 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 204722000028 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 204722000029 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 204722000030 ligand binding site [chemical binding]; other site 204722000031 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 204722000032 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 204722000033 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 204722000034 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 204722000035 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 204722000036 putative NAD(P) binding site [chemical binding]; other site 204722000037 active site 204722000038 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 204722000039 hydrophobic substrate binding pocket; other site 204722000040 Isochorismatase family; Region: Isochorismatase; pfam00857 204722000041 active site 204722000042 conserved cis-peptide bond; other site 204722000043 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 204722000044 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 204722000045 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 204722000046 acyl-activating enzyme (AAE) consensus motif; other site 204722000047 active site 204722000048 AMP binding site [chemical binding]; other site 204722000049 substrate binding site [chemical binding]; other site 204722000050 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 204722000051 isochorismate synthases; Region: isochor_syn; TIGR00543 204722000052 Condensation domain; Region: Condensation; pfam00668 204722000053 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 204722000054 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 204722000055 Moco binding site; other site 204722000056 metal coordination site [ion binding]; other site 204722000057 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 204722000058 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 204722000059 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 204722000060 RNA polymerase sigma factor; Provisional; Region: PRK12539 204722000061 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204722000062 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 204722000063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 204722000064 Transcriptional regulators [Transcription]; Region: FadR; COG2186 204722000065 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722000066 DNA-binding site [nucleotide binding]; DNA binding site 204722000067 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 204722000068 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 204722000069 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 204722000070 putative ligand binding site [chemical binding]; other site 204722000071 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 204722000072 TM-ABC transporter signature motif; other site 204722000073 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 204722000074 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 204722000075 TM-ABC transporter signature motif; other site 204722000076 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204722000077 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204722000078 Walker A/P-loop; other site 204722000079 ATP binding site [chemical binding]; other site 204722000080 Q-loop/lid; other site 204722000081 ABC transporter signature motif; other site 204722000082 Walker B; other site 204722000083 D-loop; other site 204722000084 H-loop/switch region; other site 204722000085 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204722000086 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204722000087 Walker A/P-loop; other site 204722000088 ATP binding site [chemical binding]; other site 204722000089 Q-loop/lid; other site 204722000090 ABC transporter signature motif; other site 204722000091 Walker B; other site 204722000092 D-loop; other site 204722000093 H-loop/switch region; other site 204722000094 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 204722000095 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722000096 active site 204722000097 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 204722000098 classical (c) SDRs; Region: SDR_c; cd05233 204722000099 NAD(P) binding site [chemical binding]; other site 204722000100 active site 204722000101 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 204722000102 classical (c) SDRs; Region: SDR_c; cd05233 204722000103 NAD(P) binding site [chemical binding]; other site 204722000104 active site 204722000105 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 204722000106 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 204722000107 tetramer interface [polypeptide binding]; other site 204722000108 TPP-binding site [chemical binding]; other site 204722000109 heterodimer interface [polypeptide binding]; other site 204722000110 phosphorylation loop region [posttranslational modification] 204722000111 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 204722000112 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 204722000113 alpha subunit interface [polypeptide binding]; other site 204722000114 TPP binding site [chemical binding]; other site 204722000115 heterodimer interface [polypeptide binding]; other site 204722000116 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 204722000117 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 204722000118 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 204722000119 E3 interaction surface; other site 204722000120 lipoyl attachment site [posttranslational modification]; other site 204722000121 e3 binding domain; Region: E3_binding; pfam02817 204722000122 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 204722000123 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 204722000124 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 204722000125 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 204722000126 shikimate binding site; other site 204722000127 NAD(P) binding site [chemical binding]; other site 204722000128 magnesium-transporting ATPase; Provisional; Region: PRK15122 204722000129 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 204722000130 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204722000131 Soluble P-type ATPase [General function prediction only]; Region: COG4087 204722000132 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 204722000133 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 204722000134 MgtC family; Region: MgtC; pfam02308 204722000135 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 204722000136 ATP binding site [chemical binding]; other site 204722000137 Mg2+ binding site [ion binding]; other site 204722000138 G-X-G motif; other site 204722000139 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 204722000140 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 204722000141 active site 204722000142 phosphorylation site [posttranslational modification] 204722000143 intermolecular recognition site; other site 204722000144 dimerization interface [polypeptide binding]; other site 204722000145 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 204722000146 dimerization interface [polypeptide binding]; other site 204722000147 DNA binding residues [nucleotide binding] 204722000148 Response regulator receiver domain; Region: Response_reg; pfam00072 204722000149 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 204722000150 active site 204722000151 phosphorylation site [posttranslational modification] 204722000152 intermolecular recognition site; other site 204722000153 dimerization interface [polypeptide binding]; other site 204722000154 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 204722000155 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 204722000156 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 204722000157 active site 204722000158 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 204722000159 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 204722000160 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 204722000161 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 204722000162 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 204722000163 putative dimer interface [polypeptide binding]; other site 204722000164 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 204722000165 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 204722000166 tetramer interface [polypeptide binding]; other site 204722000167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722000168 catalytic residue [active] 204722000169 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 204722000170 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 204722000171 active site 204722000172 dimer interface [polypeptide binding]; other site 204722000173 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 204722000174 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 204722000175 active site 204722000176 FMN binding site [chemical binding]; other site 204722000177 substrate binding site [chemical binding]; other site 204722000178 3Fe-4S cluster binding site [ion binding]; other site 204722000179 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 204722000180 domain interface; other site 204722000181 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 204722000182 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 204722000183 SGNH_peri2; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri2; cd01829 204722000184 active site 204722000185 catalytic triad [active] 204722000186 oxyanion hole [active] 204722000187 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 204722000188 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204722000189 ligand binding site [chemical binding]; other site 204722000190 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 204722000191 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 204722000192 ATP binding site [chemical binding]; other site 204722000193 Walker A motif; other site 204722000194 hexamer interface [polypeptide binding]; other site 204722000195 Walker B motif; other site 204722000196 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 204722000197 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 204722000198 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 204722000199 VirB7 interaction site; other site 204722000200 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 204722000201 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 204722000202 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 204722000203 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 204722000204 Type IV secretion system proteins; Region: T4SS; pfam07996 204722000205 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 204722000206 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 204722000207 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 204722000208 TrbC/VIRB2 family; Region: TrbC; pfam04956 204722000209 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 204722000210 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204722000211 catalytic residue [active] 204722000212 lytic murein transglycosylase; Region: MltB_2; TIGR02283 204722000213 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 204722000214 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204722000215 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 204722000216 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 204722000217 active site 204722000218 tetramer interface; other site 204722000219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 204722000220 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 204722000221 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 204722000222 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 204722000223 putative active site [active] 204722000224 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 204722000225 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 204722000226 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 204722000227 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 204722000228 ferrochelatase; Reviewed; Region: hemH; PRK00035 204722000229 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 204722000230 C-terminal domain interface [polypeptide binding]; other site 204722000231 active site 204722000232 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 204722000233 active site 204722000234 N-terminal domain interface [polypeptide binding]; other site 204722000235 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 204722000236 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 204722000237 hypothetical protein; Provisional; Region: PRK07546 204722000238 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 204722000239 substrate-cofactor binding pocket; other site 204722000240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722000241 homodimer interface [polypeptide binding]; other site 204722000242 catalytic residue [active] 204722000243 aminodeoxychorismate synthase; Provisional; Region: PRK07508 204722000244 chorismate binding enzyme; Region: Chorismate_bind; cl10555 204722000245 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 204722000246 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 204722000247 active site 204722000248 Zn binding site [ion binding]; other site 204722000249 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 204722000250 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 204722000251 active site 204722000252 phosphorylation site [posttranslational modification] 204722000253 intermolecular recognition site; other site 204722000254 dimerization interface [polypeptide binding]; other site 204722000255 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 204722000256 Walker A motif; other site 204722000257 ATP binding site [chemical binding]; other site 204722000258 Walker B motif; other site 204722000259 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 204722000260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 204722000261 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 204722000262 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 204722000263 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 204722000264 active site residue [active] 204722000265 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 204722000266 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 204722000267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722000268 dimer interface [polypeptide binding]; other site 204722000269 conserved gate region; other site 204722000270 putative PBP binding loops; other site 204722000271 ABC-ATPase subunit interface; other site 204722000272 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 204722000273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722000274 Walker A/P-loop; other site 204722000275 ATP binding site [chemical binding]; other site 204722000276 Q-loop/lid; other site 204722000277 ABC transporter signature motif; other site 204722000278 Walker B; other site 204722000279 D-loop; other site 204722000280 H-loop/switch region; other site 204722000281 TOBE domain; Region: TOBE; cl01440 204722000282 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 204722000283 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 204722000284 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 204722000285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722000286 LysR family transcriptional regulator; Provisional; Region: PRK14997 204722000287 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 204722000288 putative effector binding pocket; other site 204722000289 dimerization interface [polypeptide binding]; other site 204722000290 amidase; Provisional; Region: PRK08310 204722000291 indole-3-acetamide amidohydrolase; Region: PLN02722 204722000292 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 204722000293 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 204722000294 dimer interface [polypeptide binding]; other site 204722000295 active site 204722000296 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204722000297 catalytic residues [active] 204722000298 substrate binding site [chemical binding]; other site 204722000299 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 204722000300 Chain length determinant protein; Region: Wzz; pfam02706 204722000301 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 204722000302 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 204722000303 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 204722000304 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 204722000305 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 204722000306 active site 204722000307 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 204722000308 O-Antigen ligase; Region: Wzy_C; pfam04932 204722000309 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722000310 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722000311 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722000312 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722000313 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 204722000314 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 204722000315 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 204722000316 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 204722000317 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 204722000318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722000319 Walker A/P-loop; other site 204722000320 ATP binding site [chemical binding]; other site 204722000321 Q-loop/lid; other site 204722000322 ABC transporter signature motif; other site 204722000323 Walker B; other site 204722000324 D-loop; other site 204722000325 H-loop/switch region; other site 204722000326 TOBE domain; Region: TOBE_2; pfam08402 204722000327 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 204722000328 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722000329 dimer interface [polypeptide binding]; other site 204722000330 conserved gate region; other site 204722000331 putative PBP binding loops; other site 204722000332 ABC-ATPase subunit interface; other site 204722000333 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722000334 dimer interface [polypeptide binding]; other site 204722000335 conserved gate region; other site 204722000336 putative PBP binding loops; other site 204722000337 ABC-ATPase subunit interface; other site 204722000338 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 204722000339 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 204722000340 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 204722000341 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722000342 putative substrate translocation pore; other site 204722000343 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722000344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 204722000345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204722000346 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 204722000347 Autoinducer binding domain; Region: Autoind_bind; pfam03472 204722000348 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 204722000349 DNA binding residues [nucleotide binding] 204722000350 dimerization interface [polypeptide binding]; other site 204722000351 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 204722000352 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 204722000353 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 204722000354 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 204722000355 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 204722000356 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 204722000357 flagellar motor protein MotA; Validated; Region: PRK09110 204722000358 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 204722000359 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 204722000360 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 204722000361 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 204722000362 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 204722000363 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 204722000364 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 204722000365 Walker A motif; other site 204722000366 ATP binding site [chemical binding]; other site 204722000367 Walker B motif; other site 204722000368 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 204722000369 active site 204722000370 GtrA-like protein; Region: GtrA; pfam04138 204722000371 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 204722000372 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 204722000373 Ligand binding site; other site 204722000374 Putative Catalytic site; other site 204722000375 DXD motif; other site 204722000376 Peptidase family M48; Region: Peptidase_M48; cl12018 204722000377 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 204722000378 putative active site [active] 204722000379 YdjC motif; other site 204722000380 Mg binding site [ion binding]; other site 204722000381 putative homodimer interface [polypeptide binding]; other site 204722000382 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 204722000383 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 204722000384 Helix-turn-helix domain; Region: HTH_18; pfam12833 204722000385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722000386 Transposase; Region: HTH_Tnp_1; cl17663 204722000387 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722000388 D-galactonate transporter; Region: 2A0114; TIGR00893 204722000389 putative substrate translocation pore; other site 204722000390 putative aldolase; Validated; Region: PRK08130 204722000391 intersubunit interface [polypeptide binding]; other site 204722000392 active site 204722000393 Zn2+ binding site [ion binding]; other site 204722000394 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 204722000395 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 204722000396 putative NAD(P) binding site [chemical binding]; other site 204722000397 active site 204722000398 putative substrate binding site [chemical binding]; other site 204722000399 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 204722000400 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 204722000401 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 204722000402 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 204722000403 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 204722000404 Metal-binding active site; metal-binding site 204722000405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 204722000406 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 204722000407 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 204722000408 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 204722000409 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 204722000410 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 204722000411 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 204722000412 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 204722000413 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK06005 204722000414 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 204722000415 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 204722000416 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 204722000417 Uncharacterized conserved protein [Function unknown]; Region: COG3334 204722000418 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 204722000419 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 204722000420 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 204722000421 FliP family; Region: FliP; cl00593 204722000422 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 204722000423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4893 204722000424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204722000425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722000426 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 204722000427 putative dimerization interface [polypeptide binding]; other site 204722000428 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 204722000429 CoA-transferase family III; Region: CoA_transf_3; pfam02515 204722000430 Uncharacterized conserved protein [Function unknown]; Region: COG3777 204722000431 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 204722000432 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 204722000433 active site 2 [active] 204722000434 active site 1 [active] 204722000435 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 204722000436 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 204722000437 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204722000438 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204722000439 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 204722000440 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 204722000441 Autotransporter beta-domain; Region: Autotransporter; pfam03797 204722000442 Cytochrome c2 [Energy production and conversion]; Region: COG3474 204722000443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 204722000444 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 204722000445 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722000446 DNA-binding site [nucleotide binding]; DNA binding site 204722000447 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 204722000448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722000449 transcriptional activator TtdR; Provisional; Region: PRK09801 204722000450 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 204722000451 putative effector binding pocket; other site 204722000452 dimerization interface [polypeptide binding]; other site 204722000453 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 204722000454 FAD binding domain; Region: FAD_binding_4; pfam01565 204722000455 FAD binding domain; Region: FAD_binding_4; pfam01565 204722000456 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 204722000457 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 204722000458 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 204722000459 Cysteine-rich domain; Region: CCG; pfam02754 204722000460 Cysteine-rich domain; Region: CCG; pfam02754 204722000461 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 204722000462 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 204722000463 active site 204722000464 catalytic tetrad [active] 204722000465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 204722000466 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 204722000467 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 204722000468 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 204722000469 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 204722000470 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 204722000471 dimer interface [polypeptide binding]; other site 204722000472 motif 1; other site 204722000473 motif 2; other site 204722000474 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 204722000475 active site 204722000476 motif 3; other site 204722000477 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 204722000478 anticodon binding site; other site 204722000479 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 204722000480 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 204722000481 motif 1; other site 204722000482 dimer interface [polypeptide binding]; other site 204722000483 active site 204722000484 motif 2; other site 204722000485 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 204722000486 active site 204722000487 motif 3; other site 204722000488 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 204722000489 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 204722000490 Predicted membrane protein [Function unknown]; Region: COG2259 204722000491 fumarate hydratase; Reviewed; Region: fumC; PRK00485 204722000492 Class II fumarases; Region: Fumarase_classII; cd01362 204722000493 active site 204722000494 tetramer interface [polypeptide binding]; other site 204722000495 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 204722000496 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 204722000497 ring oligomerisation interface [polypeptide binding]; other site 204722000498 ATP/Mg binding site [chemical binding]; other site 204722000499 stacking interactions; other site 204722000500 hinge regions; other site 204722000501 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 204722000502 oligomerisation interface [polypeptide binding]; other site 204722000503 mobile loop; other site 204722000504 roof hairpin; other site 204722000505 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 204722000506 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 204722000507 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 204722000508 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 204722000509 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 204722000510 active site 204722000511 Riboflavin kinase; Region: Flavokinase; smart00904 204722000512 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 204722000513 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204722000514 active site 204722000515 HIGH motif; other site 204722000516 nucleotide binding site [chemical binding]; other site 204722000517 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 204722000518 active site 204722000519 KMSKS motif; other site 204722000520 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 204722000521 tRNA binding surface [nucleotide binding]; other site 204722000522 anticodon binding site; other site 204722000523 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 204722000524 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 204722000525 nucleoside/Zn binding site; other site 204722000526 dimer interface [polypeptide binding]; other site 204722000527 catalytic motif [active] 204722000528 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 204722000529 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 204722000530 RNA binding surface [nucleotide binding]; other site 204722000531 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 204722000532 active site 204722000533 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 204722000534 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 204722000535 S-adenosylmethionine binding site [chemical binding]; other site 204722000536 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 204722000537 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 204722000538 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 204722000539 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 204722000540 TrkA-N domain; Region: TrkA_N; pfam02254 204722000541 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 204722000542 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 204722000543 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 204722000544 active site 204722000545 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 204722000546 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 204722000547 putative acyl-acceptor binding pocket; other site 204722000548 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 204722000549 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 204722000550 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 204722000551 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 204722000552 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 204722000553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 204722000554 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 204722000555 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 204722000556 ATP binding site [chemical binding]; other site 204722000557 Mg2+ binding site [ion binding]; other site 204722000558 G-X-G motif; other site 204722000559 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 204722000560 ATP binding site [chemical binding]; other site 204722000561 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 204722000562 benzoate transport; Region: 2A0115; TIGR00895 204722000563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722000564 putative substrate translocation pore; other site 204722000565 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 204722000566 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 204722000567 active site 204722000568 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 204722000569 Transcriptional regulator [Transcription]; Region: IclR; COG1414 204722000570 Bacterial transcriptional regulator; Region: IclR; pfam01614 204722000571 enoyl-CoA hydratase; Provisional; Region: PRK08138 204722000572 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 204722000573 substrate binding site [chemical binding]; other site 204722000574 oxyanion hole (OAH) forming residues; other site 204722000575 trimer interface [polypeptide binding]; other site 204722000576 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 204722000577 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 204722000578 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 204722000579 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 204722000580 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 204722000581 CoA-transferase family III; Region: CoA_transf_3; pfam02515 204722000582 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg7; cd04786 204722000583 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 204722000584 DNA binding residues [nucleotide binding] 204722000585 putative dimer interface [polypeptide binding]; other site 204722000586 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 204722000587 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 204722000588 potential catalytic triad [active] 204722000589 conserved cys residue [active] 204722000590 sensor protein QseC; Provisional; Region: PRK10337 204722000591 HAMP domain; Region: HAMP; pfam00672 204722000592 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 204722000593 dimer interface [polypeptide binding]; other site 204722000594 phosphorylation site [posttranslational modification] 204722000595 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 204722000596 Mg2+ binding site [ion binding]; other site 204722000597 G-X-G motif; other site 204722000598 Uncharacterized conserved protein [Function unknown]; Region: COG5591 204722000599 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 204722000600 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 204722000601 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 204722000602 Flavodoxin; Region: Flavodoxin_1; pfam00258 204722000603 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_like2; cd06201 204722000604 FAD binding pocket [chemical binding]; other site 204722000605 FAD binding motif [chemical binding]; other site 204722000606 catalytic residues [active] 204722000607 NAD binding pocket [chemical binding]; other site 204722000608 phosphate binding motif [ion binding]; other site 204722000609 beta-alpha-beta structure motif; other site 204722000610 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 204722000611 ApbE family; Region: ApbE; pfam02424 204722000612 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 204722000613 GAF domain; Region: GAF; pfam01590 204722000614 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204722000615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204722000616 metal binding site [ion binding]; metal-binding site 204722000617 active site 204722000618 I-site; other site 204722000619 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 204722000620 EamA-like transporter family; Region: EamA; pfam00892 204722000621 EamA-like transporter family; Region: EamA; cl17759 204722000622 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204722000623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722000624 DNA-binding site [nucleotide binding]; DNA binding site 204722000625 FCD domain; Region: FCD; pfam07729 204722000626 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 204722000627 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 204722000628 inhibitor site; inhibition site 204722000629 active site 204722000630 dimer interface [polypeptide binding]; other site 204722000631 catalytic residue [active] 204722000632 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 204722000633 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 204722000634 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 204722000635 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 204722000636 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 204722000637 Cytochrome c; Region: Cytochrom_C; pfam00034 204722000638 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 204722000639 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 204722000640 Binuclear center (active site) [active] 204722000641 K-pathway; other site 204722000642 Putative proton exit pathway; other site 204722000643 MoxR-like ATPases [General function prediction only]; Region: COG0714 204722000644 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 204722000645 Walker A motif; other site 204722000646 ATP binding site [chemical binding]; other site 204722000647 Walker B motif; other site 204722000648 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 204722000649 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 204722000650 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 204722000651 metal ion-dependent adhesion site (MIDAS); other site 204722000652 Uncharacterized conserved protein [Function unknown]; Region: COG4309 204722000653 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 204722000654 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 204722000655 CPxP motif; other site 204722000656 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 204722000657 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 204722000658 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 204722000659 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 204722000660 nucleophilic elbow; other site 204722000661 catalytic triad; other site 204722000662 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 204722000663 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 204722000664 Multicopper oxidase; Region: Cu-oxidase; pfam00394 204722000665 Uncharacterized conserved protein [Function unknown]; Region: COG1262 204722000666 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 204722000667 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204722000668 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 204722000669 ligand binding site [chemical binding]; other site 204722000670 flexible hinge region; other site 204722000671 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 204722000672 putative switch regulator; other site 204722000673 non-specific DNA interactions [nucleotide binding]; other site 204722000674 DNA binding site [nucleotide binding] 204722000675 sequence specific DNA binding site [nucleotide binding]; other site 204722000676 putative cAMP binding site [chemical binding]; other site 204722000677 Transcriptional regulators [Transcription]; Region: PurR; COG1609 204722000678 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 204722000679 DNA binding site [nucleotide binding] 204722000680 domain linker motif; other site 204722000681 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 204722000682 dimerization interface [polypeptide binding]; other site 204722000683 ligand binding site [chemical binding]; other site 204722000684 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 204722000685 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 204722000686 putative ligand binding site [chemical binding]; other site 204722000687 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 204722000688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722000689 Walker A/P-loop; other site 204722000690 ATP binding site [chemical binding]; other site 204722000691 Q-loop/lid; other site 204722000692 ABC transporter signature motif; other site 204722000693 Walker B; other site 204722000694 D-loop; other site 204722000695 H-loop/switch region; other site 204722000696 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 204722000697 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722000698 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 204722000699 TM-ABC transporter signature motif; other site 204722000700 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 204722000701 classical (c) SDRs; Region: SDR_c; cd05233 204722000702 NAD(P) binding site [chemical binding]; other site 204722000703 active site 204722000704 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 204722000705 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 204722000706 N- and C-terminal domain interface [polypeptide binding]; other site 204722000707 active site 204722000708 MgATP binding site [chemical binding]; other site 204722000709 catalytic site [active] 204722000710 metal binding site [ion binding]; metal-binding site 204722000711 carbohydrate binding site [chemical binding]; other site 204722000712 putative homodimer interface [polypeptide binding]; other site 204722000713 RES domain; Region: RES; smart00953 204722000714 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 204722000715 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 204722000716 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 204722000717 4Fe-4S binding domain; Region: Fer4_5; pfam12801 204722000718 4Fe-4S binding domain; Region: Fer4_5; pfam12801 204722000719 nitrous-oxide reductase; Validated; Region: PRK02888 204722000720 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 204722000721 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 204722000722 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 204722000723 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 204722000724 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 204722000725 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 204722000726 Walker A/P-loop; other site 204722000727 ATP binding site [chemical binding]; other site 204722000728 Q-loop/lid; other site 204722000729 ABC transporter signature motif; other site 204722000730 Walker B; other site 204722000731 D-loop; other site 204722000732 H-loop/switch region; other site 204722000733 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 204722000734 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 204722000735 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 204722000736 ApbE family; Region: ApbE; pfam02424 204722000737 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204722000738 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 204722000739 ligand binding site [chemical binding]; other site 204722000740 flexible hinge region; other site 204722000741 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 204722000742 putative switch regulator; other site 204722000743 non-specific DNA interactions [nucleotide binding]; other site 204722000744 DNA binding site [nucleotide binding] 204722000745 sequence specific DNA binding site [nucleotide binding]; other site 204722000746 putative cAMP binding site [chemical binding]; other site 204722000747 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 204722000748 pseudoazurin; Region: pseudoazurin; TIGR02375 204722000749 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 204722000750 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 204722000751 NMT1-like family; Region: NMT1_2; pfam13379 204722000752 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 204722000753 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722000754 dimer interface [polypeptide binding]; other site 204722000755 conserved gate region; other site 204722000756 putative PBP binding loops; other site 204722000757 ABC-ATPase subunit interface; other site 204722000758 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 204722000759 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 204722000760 Walker A/P-loop; other site 204722000761 ATP binding site [chemical binding]; other site 204722000762 Q-loop/lid; other site 204722000763 ABC transporter signature motif; other site 204722000764 Walker B; other site 204722000765 D-loop; other site 204722000766 H-loop/switch region; other site 204722000767 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 204722000768 putative protease; Provisional; Region: PRK15447 204722000769 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 204722000770 Peptidase family U32; Region: Peptidase_U32; pfam01136 204722000771 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 204722000772 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 204722000773 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 204722000774 Flavoprotein; Region: Flavoprotein; pfam02441 204722000775 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 204722000776 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 204722000777 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 204722000778 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 204722000779 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 204722000780 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 204722000781 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; cl00470 204722000782 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 204722000783 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 204722000784 [4Fe-4S] binding site [ion binding]; other site 204722000785 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 204722000786 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 204722000787 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 204722000788 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 204722000789 molybdopterin cofactor binding site; other site 204722000790 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 204722000791 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722000792 putative substrate translocation pore; other site 204722000793 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 204722000794 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 204722000795 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 204722000796 ligand binding site [chemical binding]; other site 204722000797 flexible hinge region; other site 204722000798 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 204722000799 Transcriptional regulators [Transcription]; Region: PurR; COG1609 204722000800 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 204722000801 DNA binding site [nucleotide binding] 204722000802 domain linker motif; other site 204722000803 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 204722000804 ligand binding site [chemical binding]; other site 204722000805 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 204722000806 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 204722000807 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 204722000808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722000809 dimer interface [polypeptide binding]; other site 204722000810 conserved gate region; other site 204722000811 putative PBP binding loops; other site 204722000812 ABC-ATPase subunit interface; other site 204722000813 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 204722000814 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722000815 dimer interface [polypeptide binding]; other site 204722000816 conserved gate region; other site 204722000817 putative PBP binding loops; other site 204722000818 ABC-ATPase subunit interface; other site 204722000819 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 204722000820 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 204722000821 Walker A/P-loop; other site 204722000822 ATP binding site [chemical binding]; other site 204722000823 Q-loop/lid; other site 204722000824 ABC transporter signature motif; other site 204722000825 Walker B; other site 204722000826 D-loop; other site 204722000827 H-loop/switch region; other site 204722000828 TOBE domain; Region: TOBE_2; pfam08402 204722000829 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 204722000830 conserved cys residue [active] 204722000831 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722000832 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722000833 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 204722000834 Transmembrane secretion effector; Region: MFS_3; pfam05977 204722000835 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722000836 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722000837 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 204722000838 catalytic residues [active] 204722000839 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 204722000840 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 204722000841 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 204722000842 Class I ribonucleotide reductase; Region: RNR_I; cd01679 204722000843 active site 204722000844 dimer interface [polypeptide binding]; other site 204722000845 catalytic residues [active] 204722000846 effector binding site; other site 204722000847 R2 peptide binding site; other site 204722000848 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 204722000849 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 204722000850 dimer interface [polypeptide binding]; other site 204722000851 putative radical transfer pathway; other site 204722000852 diiron center [ion binding]; other site 204722000853 tyrosyl radical; other site 204722000854 septum formation inhibitor; Reviewed; Region: minC; PRK05177 204722000855 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 204722000856 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 204722000857 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 204722000858 Switch I; other site 204722000859 Switch II; other site 204722000860 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 204722000861 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 204722000862 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 204722000863 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 204722000864 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 204722000865 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 204722000866 Walker A/P-loop; other site 204722000867 ATP binding site [chemical binding]; other site 204722000868 Q-loop/lid; other site 204722000869 ABC transporter signature motif; other site 204722000870 Walker B; other site 204722000871 D-loop; other site 204722000872 H-loop/switch region; other site 204722000873 TOBE domain; Region: TOBE_2; pfam08402 204722000874 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722000875 dimer interface [polypeptide binding]; other site 204722000876 conserved gate region; other site 204722000877 putative PBP binding loops; other site 204722000878 ABC-ATPase subunit interface; other site 204722000879 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 204722000880 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722000881 dimer interface [polypeptide binding]; other site 204722000882 conserved gate region; other site 204722000883 putative PBP binding loops; other site 204722000884 ABC-ATPase subunit interface; other site 204722000885 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 204722000886 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 204722000887 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204722000888 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722000889 Predicted membrane protein [Function unknown]; Region: COG4803 204722000890 glutaminase; Reviewed; Region: PRK12356 204722000891 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 204722000892 acid-resistance protein; Provisional; Region: PRK10208 204722000893 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 204722000894 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 204722000895 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 204722000896 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 204722000897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722000898 LysR substrate binding domain; Region: LysR_substrate; pfam03466 204722000899 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 204722000900 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 204722000901 Substrate binding site; other site 204722000902 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 204722000903 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 204722000904 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 204722000905 active site 204722000906 substrate binding site [chemical binding]; other site 204722000907 metal binding site [ion binding]; metal-binding site 204722000908 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 204722000909 putative active site pocket [active] 204722000910 cleavage site 204722000911 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 204722000912 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 204722000913 putative ion selectivity filter; other site 204722000914 putative pore gating glutamate residue; other site 204722000915 putative H+/Cl- coupling transport residue; other site 204722000916 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 204722000917 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 204722000918 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 204722000919 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 204722000920 active site 204722000921 Cytochrome c [Energy production and conversion]; Region: COG3258 204722000922 Cytochrome c; Region: Cytochrom_C; pfam00034 204722000923 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 204722000924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722000925 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 204722000926 dimerization interface [polypeptide binding]; other site 204722000927 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 204722000928 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 204722000929 tetramer interface [polypeptide binding]; other site 204722000930 heme binding pocket [chemical binding]; other site 204722000931 NADPH binding site [chemical binding]; other site 204722000932 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 204722000933 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 204722000934 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 204722000935 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 204722000936 CoenzymeA binding site [chemical binding]; other site 204722000937 subunit interaction site [polypeptide binding]; other site 204722000938 PHB binding site; other site 204722000939 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 204722000940 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 204722000941 GMP synthase; Reviewed; Region: guaA; PRK00074 204722000942 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 204722000943 AMP/PPi binding site [chemical binding]; other site 204722000944 candidate oxyanion hole; other site 204722000945 catalytic triad [active] 204722000946 potential glutamine specificity residues [chemical binding]; other site 204722000947 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 204722000948 ATP Binding subdomain [chemical binding]; other site 204722000949 Ligand Binding sites [chemical binding]; other site 204722000950 Dimerization subdomain; other site 204722000951 integrase; Provisional; Region: PRK09692 204722000952 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 204722000953 active site 204722000954 Int/Topo IB signature motif; other site 204722000955 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 204722000956 Replication initiator protein A; Region: RPA; pfam10134 204722000957 P-type conjugative transfer protein TrbL; Region: TrbL_P; TIGR02783 204722000958 P-type conjugative transfer protein TrbJ; Region: TrbJ_Ti; TIGR02780 204722000959 TraC-like protein; Region: TraC; cl06725 204722000960 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 204722000961 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 204722000962 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 204722000963 Predicted ATPase [General function prediction only]; Region: COG5293 204722000964 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 204722000965 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 204722000966 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 204722000967 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 204722000968 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 204722000969 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 204722000970 4Fe-4S binding domain; Region: Fer4_5; pfam12801 204722000971 putative phosphoketolase; Provisional; Region: PRK05261 204722000972 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 204722000973 TPP-binding site; other site 204722000974 XFP C-terminal domain; Region: XFP_C; pfam09363 204722000975 acetate kinase; Provisional; Region: PRK07058 204722000976 propionate/acetate kinase; Provisional; Region: PRK12379 204722000977 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 204722000978 Cytochrome P450; Region: p450; cl12078 204722000979 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204722000980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722000981 DNA-binding site [nucleotide binding]; DNA binding site 204722000982 FCD domain; Region: FCD; pfam07729 204722000983 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 204722000984 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 204722000985 NAD(P) binding site [chemical binding]; other site 204722000986 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204722000987 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 204722000988 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722000989 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 204722000990 TM-ABC transporter signature motif; other site 204722000991 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204722000992 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204722000993 Walker A/P-loop; other site 204722000994 ATP binding site [chemical binding]; other site 204722000995 Q-loop/lid; other site 204722000996 ABC transporter signature motif; other site 204722000997 Walker B; other site 204722000998 D-loop; other site 204722000999 H-loop/switch region; other site 204722001000 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 204722001001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204722001002 NAD(P) binding site [chemical binding]; other site 204722001003 active site 204722001004 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 204722001005 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 204722001006 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 204722001007 shikimate binding site; other site 204722001008 NAD(P) binding site [chemical binding]; other site 204722001009 choline dehydrogenase; Validated; Region: PRK02106 204722001010 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 204722001011 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722001012 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 204722001013 tetramerization interface [polypeptide binding]; other site 204722001014 NAD(P) binding site [chemical binding]; other site 204722001015 catalytic residues [active] 204722001016 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204722001017 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 204722001018 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 204722001019 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 204722001020 NAD binding site [chemical binding]; other site 204722001021 catalytic Zn binding site [ion binding]; other site 204722001022 substrate binding site [chemical binding]; other site 204722001023 structural Zn binding site [ion binding]; other site 204722001024 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722001025 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722001026 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722001027 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722001028 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 204722001029 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722001030 Walker A/P-loop; other site 204722001031 ATP binding site [chemical binding]; other site 204722001032 Q-loop/lid; other site 204722001033 ABC transporter signature motif; other site 204722001034 Walker B; other site 204722001035 D-loop; other site 204722001036 H-loop/switch region; other site 204722001037 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 204722001038 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 204722001039 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722001040 Walker A/P-loop; other site 204722001041 ATP binding site [chemical binding]; other site 204722001042 Q-loop/lid; other site 204722001043 ABC transporter signature motif; other site 204722001044 Walker B; other site 204722001045 D-loop; other site 204722001046 H-loop/switch region; other site 204722001047 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 204722001048 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 204722001049 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 204722001050 inhibitor site; inhibition site 204722001051 active site 204722001052 dimer interface [polypeptide binding]; other site 204722001053 catalytic residue [active] 204722001054 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 204722001055 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001056 dimer interface [polypeptide binding]; other site 204722001057 conserved gate region; other site 204722001058 putative PBP binding loops; other site 204722001059 ABC-ATPase subunit interface; other site 204722001060 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 204722001061 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001062 dimer interface [polypeptide binding]; other site 204722001063 conserved gate region; other site 204722001064 putative PBP binding loops; other site 204722001065 ABC-ATPase subunit interface; other site 204722001066 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 204722001067 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 204722001068 Transcriptional regulators [Transcription]; Region: FadR; COG2186 204722001069 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722001070 DNA-binding site [nucleotide binding]; DNA binding site 204722001071 FCD domain; Region: FCD; pfam07729 204722001072 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 204722001073 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 204722001074 putative active site cavity [active] 204722001075 N-acetylmannosamine kinase; Provisional; Region: PRK05082 204722001076 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 204722001077 nucleotide binding site [chemical binding]; other site 204722001078 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204722001079 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 204722001080 ligand binding site [chemical binding]; other site 204722001081 flexible hinge region; other site 204722001082 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 204722001083 putative switch regulator; other site 204722001084 non-specific DNA interactions [nucleotide binding]; other site 204722001085 DNA binding site [nucleotide binding] 204722001086 sequence specific DNA binding site [nucleotide binding]; other site 204722001087 putative cAMP binding site [chemical binding]; other site 204722001088 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 204722001089 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 204722001090 DNA binding residues [nucleotide binding] 204722001091 dimerization interface [polypeptide binding]; other site 204722001092 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 204722001093 Chain length determinant protein; Region: Wzz; cl15801 204722001094 AAA domain; Region: AAA_31; pfam13614 204722001095 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 204722001096 G3 box; other site 204722001097 Switch II region; other site 204722001098 G4 box; other site 204722001099 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 204722001100 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 204722001101 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 204722001102 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 204722001103 NADP binding site [chemical binding]; other site 204722001104 active site 204722001105 putative substrate binding site [chemical binding]; other site 204722001106 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 204722001107 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 204722001108 NADP-binding site; other site 204722001109 homotetramer interface [polypeptide binding]; other site 204722001110 substrate binding site [chemical binding]; other site 204722001111 homodimer interface [polypeptide binding]; other site 204722001112 active site 204722001113 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204722001114 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 204722001115 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204722001116 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 204722001117 putative ADP-binding pocket [chemical binding]; other site 204722001118 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204722001119 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 204722001120 putative trimer interface [polypeptide binding]; other site 204722001121 putative active site [active] 204722001122 putative substrate binding site [chemical binding]; other site 204722001123 putative CoA binding site [chemical binding]; other site 204722001124 Uncharacterized conserved protein [Function unknown]; Region: COG1434 204722001125 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 204722001126 putative active site [active] 204722001127 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 204722001128 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 204722001129 putative metal binding site; other site 204722001130 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 204722001131 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 204722001132 Mg++ binding site [ion binding]; other site 204722001133 putative catalytic motif [active] 204722001134 substrate binding site [chemical binding]; other site 204722001135 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 204722001136 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 204722001137 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 204722001138 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 204722001139 active site 204722001140 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 204722001141 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 204722001142 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 204722001143 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204722001144 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 204722001145 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 204722001146 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204722001147 catalytic residue [active] 204722001148 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 204722001149 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 204722001150 extended (e) SDRs; Region: SDR_e; cd08946 204722001151 NAD(P) binding site [chemical binding]; other site 204722001152 active site 204722001153 substrate binding site [chemical binding]; other site 204722001154 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 204722001155 M28 Zn-Peptidases; Region: M28_like_3; cd05644 204722001156 active site 204722001157 metal binding site [ion binding]; metal-binding site 204722001158 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 204722001159 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 204722001160 Methyltransferase domain; Region: Methyltransf_23; pfam13489 204722001161 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 204722001162 S-adenosylmethionine binding site [chemical binding]; other site 204722001163 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 204722001164 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 204722001165 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 204722001166 active site 204722001167 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 204722001168 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 204722001169 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 204722001170 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 204722001171 N- and C-terminal domain interface [polypeptide binding]; other site 204722001172 active site 204722001173 MgATP binding site [chemical binding]; other site 204722001174 catalytic site [active] 204722001175 metal binding site [ion binding]; metal-binding site 204722001176 glycerol binding site [chemical binding]; other site 204722001177 homotetramer interface [polypeptide binding]; other site 204722001178 homodimer interface [polypeptide binding]; other site 204722001179 FBP binding site [chemical binding]; other site 204722001180 protein IIAGlc interface [polypeptide binding]; other site 204722001181 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722001182 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204722001183 putative substrate translocation pore; other site 204722001184 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 204722001185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722001186 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 204722001187 putative dimerization interface [polypeptide binding]; other site 204722001188 putative substrate binding pocket [chemical binding]; other site 204722001189 methionine sulfoxide reductase B; Provisional; Region: PRK00222 204722001190 SelR domain; Region: SelR; pfam01641 204722001191 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 204722001192 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 204722001193 active site 204722001194 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 204722001195 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 204722001196 dimer interface [polypeptide binding]; other site 204722001197 active site 204722001198 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 204722001199 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 204722001200 NAD binding site [chemical binding]; other site 204722001201 homodimer interface [polypeptide binding]; other site 204722001202 homotetramer interface [polypeptide binding]; other site 204722001203 active site 204722001204 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 204722001205 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 204722001206 active site 204722001207 acyl-activating enzyme (AAE) consensus motif; other site 204722001208 putative CoA binding site [chemical binding]; other site 204722001209 AMP binding site [chemical binding]; other site 204722001210 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 204722001211 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 204722001212 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722001213 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 204722001214 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 204722001215 ligand binding site [chemical binding]; other site 204722001216 NAD binding site [chemical binding]; other site 204722001217 tetramer interface [polypeptide binding]; other site 204722001218 catalytic site [active] 204722001219 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 204722001220 L-serine binding site [chemical binding]; other site 204722001221 ACT domain interface; other site 204722001222 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 204722001223 active site 204722001224 catalytic residues [active] 204722001225 metal binding site [ion binding]; metal-binding site 204722001226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 204722001227 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 204722001228 dimerization interface [polypeptide binding]; other site 204722001229 putative DNA binding site [nucleotide binding]; other site 204722001230 putative Zn2+ binding site [ion binding]; other site 204722001231 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 204722001232 Predicted transporter component [General function prediction only]; Region: COG2391 204722001233 Predicted transporter component [General function prediction only]; Region: COG2391 204722001234 Sulphur transport; Region: Sulf_transp; pfam04143 204722001235 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204722001236 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722001237 DNA-binding site [nucleotide binding]; DNA binding site 204722001238 FCD domain; Region: FCD; pfam07729 204722001239 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 204722001240 Domain of unknown function DUF20; Region: UPF0118; pfam01594 204722001241 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 204722001242 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204722001243 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 204722001244 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 204722001245 Peptidase family M23; Region: Peptidase_M23; pfam01551 204722001246 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722001247 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 204722001248 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 204722001249 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 204722001250 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 204722001251 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 204722001252 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001253 dimer interface [polypeptide binding]; other site 204722001254 conserved gate region; other site 204722001255 putative PBP binding loops; other site 204722001256 ABC-ATPase subunit interface; other site 204722001257 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 204722001258 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 204722001259 Walker A/P-loop; other site 204722001260 ATP binding site [chemical binding]; other site 204722001261 Q-loop/lid; other site 204722001262 ABC transporter signature motif; other site 204722001263 Walker B; other site 204722001264 D-loop; other site 204722001265 H-loop/switch region; other site 204722001266 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 204722001267 NMT1/THI5 like; Region: NMT1; pfam09084 204722001268 substrate binding pocket [chemical binding]; other site 204722001269 membrane-bound complex binding site; other site 204722001270 hinge residues; other site 204722001271 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722001272 putative substrate translocation pore; other site 204722001273 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 204722001274 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 204722001275 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722001276 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722001277 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722001278 HAMP domain; Region: HAMP; pfam00672 204722001279 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 204722001280 dimer interface [polypeptide binding]; other site 204722001281 phosphorylation site [posttranslational modification] 204722001282 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 204722001283 ATP binding site [chemical binding]; other site 204722001284 Mg2+ binding site [ion binding]; other site 204722001285 G-X-G motif; other site 204722001286 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204722001287 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 204722001288 active site 204722001289 phosphorylation site [posttranslational modification] 204722001290 intermolecular recognition site; other site 204722001291 dimerization interface [polypeptide binding]; other site 204722001292 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 204722001293 DNA binding site [nucleotide binding] 204722001294 Uncharacterized conserved protein [Function unknown]; Region: COG3189 204722001295 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 204722001296 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204722001297 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 204722001298 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 204722001299 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 204722001300 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722001301 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 204722001302 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722001303 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 204722001304 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 204722001305 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 204722001306 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 204722001307 proposed active site lysine [active] 204722001308 conserved cys residue [active] 204722001309 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 204722001310 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 204722001311 active site 204722001312 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 204722001313 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 204722001314 dimer interface [polypeptide binding]; other site 204722001315 active site 204722001316 CoA binding pocket [chemical binding]; other site 204722001317 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 204722001318 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 204722001319 inhibitor-cofactor binding pocket; inhibition site 204722001320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722001321 catalytic residue [active] 204722001322 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 204722001323 AAA domain; Region: AAA_26; pfam13500 204722001324 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 204722001325 hypothetical protein; Provisional; Region: PRK07505 204722001326 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204722001327 catalytic residue [active] 204722001328 biotin synthase; Region: bioB; TIGR00433 204722001329 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 204722001330 FeS/SAM binding site; other site 204722001331 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 204722001332 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 204722001333 MPT binding site; other site 204722001334 trimer interface [polypeptide binding]; other site 204722001335 Nitroreductase-like family 4. 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_4; cd02140 204722001336 dimer interface [polypeptide binding]; other site 204722001337 FMN binding site [chemical binding]; other site 204722001338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 204722001339 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 204722001340 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 204722001341 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 204722001342 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204722001343 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 204722001344 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 204722001345 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 204722001346 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 204722001347 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204722001348 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12596 204722001349 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 204722001350 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 204722001351 Predicted transcriptional regulators [Transcription]; Region: COG1510 204722001352 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 204722001353 dimerization interface [polypeptide binding]; other site 204722001354 putative DNA binding site [nucleotide binding]; other site 204722001355 putative Zn2+ binding site [ion binding]; other site 204722001356 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 204722001357 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204722001358 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 204722001359 Walker A/P-loop; other site 204722001360 ATP binding site [chemical binding]; other site 204722001361 Q-loop/lid; other site 204722001362 ABC transporter signature motif; other site 204722001363 Walker B; other site 204722001364 D-loop; other site 204722001365 H-loop/switch region; other site 204722001366 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 204722001367 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722001368 Walker A/P-loop; other site 204722001369 ATP binding site [chemical binding]; other site 204722001370 Q-loop/lid; other site 204722001371 ABC transporter signature motif; other site 204722001372 Walker B; other site 204722001373 D-loop; other site 204722001374 H-loop/switch region; other site 204722001375 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 204722001376 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 204722001377 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 204722001378 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 204722001379 Predicted outer membrane lipoprotein [Function unknown]; Region: COG4890 204722001380 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 204722001381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722001382 DNA-binding site [nucleotide binding]; DNA binding site 204722001383 UTRA domain; Region: UTRA; pfam07702 204722001384 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 204722001385 nucleotide binding site [chemical binding]; other site 204722001386 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 204722001387 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 204722001388 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 204722001389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001390 dimer interface [polypeptide binding]; other site 204722001391 conserved gate region; other site 204722001392 putative PBP binding loops; other site 204722001393 ABC-ATPase subunit interface; other site 204722001394 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 204722001395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001396 dimer interface [polypeptide binding]; other site 204722001397 conserved gate region; other site 204722001398 putative PBP binding loops; other site 204722001399 ABC-ATPase subunit interface; other site 204722001400 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722001401 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722001402 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 204722001403 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 204722001404 Walker A/P-loop; other site 204722001405 ATP binding site [chemical binding]; other site 204722001406 Q-loop/lid; other site 204722001407 ABC transporter signature motif; other site 204722001408 Walker B; other site 204722001409 D-loop; other site 204722001410 H-loop/switch region; other site 204722001411 TOBE domain; Region: TOBE_2; pfam08402 204722001412 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 204722001413 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 204722001414 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 204722001415 tetramer interface [polypeptide binding]; other site 204722001416 TPP-binding site [chemical binding]; other site 204722001417 heterodimer interface [polypeptide binding]; other site 204722001418 phosphorylation loop region [posttranslational modification] 204722001419 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 204722001420 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 204722001421 alpha subunit interface [polypeptide binding]; other site 204722001422 TPP binding site [chemical binding]; other site 204722001423 heterodimer interface [polypeptide binding]; other site 204722001424 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 204722001425 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 204722001426 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 204722001427 E3 interaction surface; other site 204722001428 lipoyl attachment site [posttranslational modification]; other site 204722001429 e3 binding domain; Region: E3_binding; pfam02817 204722001430 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 204722001431 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 204722001432 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204722001433 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204722001434 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 204722001435 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 204722001436 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 204722001437 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 204722001438 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 204722001439 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 204722001440 homodimer interface [polypeptide binding]; other site 204722001441 homotetramer interface [polypeptide binding]; other site 204722001442 active site pocket [active] 204722001443 cleavage site 204722001444 benzoate transport; Region: 2A0115; TIGR00895 204722001445 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722001446 putative substrate translocation pore; other site 204722001447 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 204722001448 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 204722001449 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722001450 Walker A/P-loop; other site 204722001451 ATP binding site [chemical binding]; other site 204722001452 Q-loop/lid; other site 204722001453 ABC transporter signature motif; other site 204722001454 Walker B; other site 204722001455 D-loop; other site 204722001456 H-loop/switch region; other site 204722001457 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 204722001458 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722001459 Walker A/P-loop; other site 204722001460 ATP binding site [chemical binding]; other site 204722001461 Q-loop/lid; other site 204722001462 ABC transporter signature motif; other site 204722001463 Walker B; other site 204722001464 D-loop; other site 204722001465 H-loop/switch region; other site 204722001466 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 204722001467 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 204722001468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001469 dimer interface [polypeptide binding]; other site 204722001470 conserved gate region; other site 204722001471 ABC-ATPase subunit interface; other site 204722001472 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 204722001473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001474 dimer interface [polypeptide binding]; other site 204722001475 conserved gate region; other site 204722001476 putative PBP binding loops; other site 204722001477 ABC-ATPase subunit interface; other site 204722001478 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 204722001479 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 204722001480 peptide binding site [polypeptide binding]; other site 204722001481 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 204722001482 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 204722001483 peptide binding site [polypeptide binding]; other site 204722001484 Predicted integral membrane protein [Function unknown]; Region: COG5455 204722001485 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 204722001486 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 204722001487 NAD binding site [chemical binding]; other site 204722001488 putative substrate binding site 2 [chemical binding]; other site 204722001489 putative substrate binding site 1 [chemical binding]; other site 204722001490 active site 204722001491 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 204722001492 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 204722001493 NAD binding site [chemical binding]; other site 204722001494 homodimer interface [polypeptide binding]; other site 204722001495 active site 204722001496 substrate binding site [chemical binding]; other site 204722001497 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 204722001498 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 204722001499 active site 204722001500 Cellulose synthase-like protein; Region: PLN02893 204722001501 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 204722001502 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 204722001503 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 204722001504 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 204722001505 Protein of unknown function (DUF995); Region: DUF995; pfam06191 204722001506 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 204722001507 Protein of unknown function (DUF995); Region: DUF995; pfam06191 204722001508 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 204722001509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722001510 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 204722001511 yecA family protein; Region: ygfB_yecA; TIGR02292 204722001512 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 204722001513 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 204722001514 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 204722001515 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 204722001516 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 204722001517 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 204722001518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 204722001519 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204722001520 Transposase; Region: HTH_Tnp_1; pfam01527 204722001521 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 204722001522 putative deacylase active site [active] 204722001523 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 204722001524 Predicted transcriptional regulator [Transcription]; Region: COG1959 204722001525 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 204722001526 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 204722001527 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 204722001528 heme binding site [chemical binding]; other site 204722001529 ferroxidase pore; other site 204722001530 ferroxidase diiron center [ion binding]; other site 204722001531 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 204722001532 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 204722001533 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 204722001534 FeS/SAM binding site; other site 204722001535 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 204722001536 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 204722001537 putative ligand binding site [chemical binding]; other site 204722001538 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 204722001539 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722001540 TM-ABC transporter signature motif; other site 204722001541 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722001542 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 204722001543 TM-ABC transporter signature motif; other site 204722001544 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 204722001545 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 204722001546 Walker A/P-loop; other site 204722001547 ATP binding site [chemical binding]; other site 204722001548 Q-loop/lid; other site 204722001549 ABC transporter signature motif; other site 204722001550 Walker B; other site 204722001551 D-loop; other site 204722001552 H-loop/switch region; other site 204722001553 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 204722001554 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 204722001555 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 204722001556 NADP binding site [chemical binding]; other site 204722001557 dimer interface [polypeptide binding]; other site 204722001558 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 204722001559 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 204722001560 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 204722001561 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 204722001562 Uncharacterized conserved protein [Function unknown]; Region: COG3785 204722001563 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 204722001564 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 204722001565 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 204722001566 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 204722001567 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 204722001568 catalytic residues [active] 204722001569 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 204722001570 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722001571 active site 204722001572 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 204722001573 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 204722001574 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 204722001575 ATP binding site [chemical binding]; other site 204722001576 putative Mg++ binding site [ion binding]; other site 204722001577 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 204722001578 nucleotide binding region [chemical binding]; other site 204722001579 ATP-binding site [chemical binding]; other site 204722001580 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 204722001581 Uncharacterized conserved protein [Function unknown]; Region: COG2938 204722001582 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 204722001583 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 204722001584 generic binding surface II; other site 204722001585 ssDNA binding site; other site 204722001586 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 204722001587 ATP binding site [chemical binding]; other site 204722001588 putative Mg++ binding site [ion binding]; other site 204722001589 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 204722001590 nucleotide binding region [chemical binding]; other site 204722001591 ATP-binding site [chemical binding]; other site 204722001592 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 204722001593 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 204722001594 glutaminase active site [active] 204722001595 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 204722001596 dimer interface [polypeptide binding]; other site 204722001597 active site 204722001598 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 204722001599 dimer interface [polypeptide binding]; other site 204722001600 active site 204722001601 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 204722001602 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 204722001603 Substrate binding site; other site 204722001604 Mg++ binding site; other site 204722001605 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 204722001606 active site 204722001607 substrate binding site [chemical binding]; other site 204722001608 CoA binding site [chemical binding]; other site 204722001609 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 204722001610 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 204722001611 Predicted integral membrane protein [Function unknown]; Region: COG0392 204722001612 Uncharacterized conserved protein [Function unknown]; Region: COG2898 204722001613 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 204722001614 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 204722001615 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 204722001616 BA14K-like protein; Region: BA14K; pfam07886 204722001617 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 204722001618 PAS domain; Region: PAS_9; pfam13426 204722001619 putative active site [active] 204722001620 heme pocket [chemical binding]; other site 204722001621 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 204722001622 PAS fold; Region: PAS_3; pfam08447 204722001623 putative active site [active] 204722001624 heme pocket [chemical binding]; other site 204722001625 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 204722001626 HWE histidine kinase; Region: HWE_HK; pfam07536 204722001627 lipoate-protein ligase B; Provisional; Region: PRK14341 204722001628 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 204722001629 EamA-like transporter family; Region: EamA; pfam00892 204722001630 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 204722001631 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 204722001632 Mg2+ binding site [ion binding]; other site 204722001633 G-X-G motif; other site 204722001634 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 204722001635 anchoring element; other site 204722001636 dimer interface [polypeptide binding]; other site 204722001637 ATP binding site [chemical binding]; other site 204722001638 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 204722001639 active site 204722001640 metal binding site [ion binding]; metal-binding site 204722001641 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 204722001642 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 204722001643 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 204722001644 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 204722001645 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 204722001646 metal-dependent hydrolase; Provisional; Region: PRK00685 204722001647 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 204722001648 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 204722001649 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 204722001650 active site 204722001651 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 204722001652 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 204722001653 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 204722001654 dihydroorotase; Validated; Region: PRK09059 204722001655 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 204722001656 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 204722001657 active site 204722001658 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 204722001659 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 204722001660 DNA protecting protein DprA; Region: dprA; TIGR00732 204722001661 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 204722001662 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 204722001663 active site 204722001664 interdomain interaction site; other site 204722001665 putative metal-binding site [ion binding]; other site 204722001666 nucleotide binding site [chemical binding]; other site 204722001667 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 204722001668 domain I; other site 204722001669 DNA binding groove [nucleotide binding] 204722001670 phosphate binding site [ion binding]; other site 204722001671 domain II; other site 204722001672 domain III; other site 204722001673 nucleotide binding site [chemical binding]; other site 204722001674 catalytic site [active] 204722001675 domain IV; other site 204722001676 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 204722001677 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 204722001678 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 204722001679 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 204722001680 ribonuclease R; Region: RNase_R; TIGR02063 204722001681 RNB domain; Region: RNB; pfam00773 204722001682 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 204722001683 RNA binding site [nucleotide binding]; other site 204722001684 hypothetical protein; Provisional; Region: PRK05978 204722001685 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204722001686 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722001687 putative substrate translocation pore; other site 204722001688 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 204722001689 response regulator PleD; Reviewed; Region: pleD; PRK09581 204722001690 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 204722001691 active site 204722001692 phosphorylation site [posttranslational modification] 204722001693 intermolecular recognition site; other site 204722001694 dimerization interface [polypeptide binding]; other site 204722001695 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 204722001696 active site 204722001697 phosphorylation site [posttranslational modification] 204722001698 intermolecular recognition site; other site 204722001699 dimerization interface [polypeptide binding]; other site 204722001700 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204722001701 metal binding site [ion binding]; metal-binding site 204722001702 active site 204722001703 I-site; other site 204722001704 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 204722001705 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 204722001706 active site 204722001707 phosphorylation site [posttranslational modification] 204722001708 intermolecular recognition site; other site 204722001709 dimerization interface [polypeptide binding]; other site 204722001710 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 204722001711 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 204722001712 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 204722001713 DNA polymerase IV; Provisional; Region: PRK02794 204722001714 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 204722001715 active site 204722001716 DNA binding site [nucleotide binding] 204722001717 Uncharacterized conserved protein [Function unknown]; Region: COG3391 204722001718 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 204722001719 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204722001720 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204722001721 metal binding site [ion binding]; metal-binding site 204722001722 active site 204722001723 I-site; other site 204722001724 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 204722001725 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 204722001726 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 204722001727 active site 204722001728 catalytic site [active] 204722001729 substrate binding site [chemical binding]; other site 204722001730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722001731 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 204722001732 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722001733 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 204722001734 hydroxyglutarate oxidase; Provisional; Region: PRK11728 204722001735 hydroxyglutarate oxidase; Provisional; Region: PRK11728 204722001736 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 204722001737 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 204722001738 substrate binding pocket [chemical binding]; other site 204722001739 membrane-bound complex binding site; other site 204722001740 hinge residues; other site 204722001741 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 204722001742 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 204722001743 substrate binding pocket [chemical binding]; other site 204722001744 membrane-bound complex binding site; other site 204722001745 hinge residues; other site 204722001746 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 204722001747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204722001748 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 204722001749 putative DNA binding site [nucleotide binding]; other site 204722001750 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204722001751 putative Zn2+ binding site [ion binding]; other site 204722001752 AsnC family; Region: AsnC_trans_reg; pfam01037 204722001753 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 204722001754 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 204722001755 active site 204722001756 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 204722001757 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 204722001758 dimer interface [polypeptide binding]; other site 204722001759 active site 204722001760 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 204722001761 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 204722001762 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 204722001763 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 204722001764 Bacterial transcriptional regulator; Region: IclR; pfam01614 204722001765 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 204722001766 Cupin domain; Region: Cupin_2; cl17218 204722001767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722001768 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 204722001769 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 204722001770 hypothetical protein; Provisional; Region: PRK07236 204722001771 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 204722001772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722001773 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 204722001774 dimerization interface [polypeptide binding]; other site 204722001775 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 204722001776 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 204722001777 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 204722001778 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 204722001779 active site 204722001780 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 204722001781 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 204722001782 heterodimer interface [polypeptide binding]; other site 204722001783 active site 204722001784 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 204722001785 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 204722001786 tetramer interface [polypeptide binding]; other site 204722001787 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204722001788 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 204722001789 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722001790 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 204722001791 TM-ABC transporter signature motif; other site 204722001792 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 204722001793 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 204722001794 TM-ABC transporter signature motif; other site 204722001795 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204722001796 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204722001797 Walker A/P-loop; other site 204722001798 ATP binding site [chemical binding]; other site 204722001799 Q-loop/lid; other site 204722001800 ABC transporter signature motif; other site 204722001801 Walker B; other site 204722001802 D-loop; other site 204722001803 H-loop/switch region; other site 204722001804 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204722001805 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204722001806 Walker A/P-loop; other site 204722001807 ATP binding site [chemical binding]; other site 204722001808 Q-loop/lid; other site 204722001809 ABC transporter signature motif; other site 204722001810 Walker B; other site 204722001811 D-loop; other site 204722001812 H-loop/switch region; other site 204722001813 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 204722001814 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 204722001815 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 204722001816 active site 204722001817 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 204722001818 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 204722001819 active site 204722001820 dimer interface [polypeptide binding]; other site 204722001821 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 204722001822 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 204722001823 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 204722001824 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001825 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 204722001826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001827 dimer interface [polypeptide binding]; other site 204722001828 conserved gate region; other site 204722001829 ABC-ATPase subunit interface; other site 204722001830 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 204722001831 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 204722001832 Walker A/P-loop; other site 204722001833 ATP binding site [chemical binding]; other site 204722001834 Q-loop/lid; other site 204722001835 ABC transporter signature motif; other site 204722001836 Walker B; other site 204722001837 D-loop; other site 204722001838 H-loop/switch region; other site 204722001839 TOBE domain; Region: TOBE_2; pfam08402 204722001840 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 204722001841 transmembrane helices; other site 204722001842 TrkA-C domain; Region: TrkA_C; pfam02080 204722001843 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 204722001844 TrkA-C domain; Region: TrkA_C; pfam02080 204722001845 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 204722001846 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 204722001847 nucleoside/Zn binding site; other site 204722001848 dimer interface [polypeptide binding]; other site 204722001849 catalytic motif [active] 204722001850 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 204722001851 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 204722001852 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 204722001853 EamA-like transporter family; Region: EamA; pfam00892 204722001854 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204722001855 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 204722001856 FAD binding domain; Region: FAD_binding_2; pfam00890 204722001857 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 204722001858 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 204722001859 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722001860 NAD binding site [chemical binding]; other site 204722001861 catalytic residues [active] 204722001862 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 204722001863 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 204722001864 putative ligand binding residues [chemical binding]; other site 204722001865 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 204722001866 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 204722001867 ABC-ATPase subunit interface; other site 204722001868 dimer interface [polypeptide binding]; other site 204722001869 putative PBP binding regions; other site 204722001870 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 204722001871 ABC-ATPase subunit interface; other site 204722001872 dimer interface [polypeptide binding]; other site 204722001873 putative PBP binding regions; other site 204722001874 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 204722001875 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 204722001876 Walker A/P-loop; other site 204722001877 ATP binding site [chemical binding]; other site 204722001878 Q-loop/lid; other site 204722001879 ABC transporter signature motif; other site 204722001880 Walker B; other site 204722001881 D-loop; other site 204722001882 H-loop/switch region; other site 204722001883 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 204722001884 5-oxoprolinase; Region: PLN02666 204722001885 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 204722001886 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 204722001887 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 204722001888 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 204722001889 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 204722001890 substrate binding pocket [chemical binding]; other site 204722001891 membrane-bound complex binding site; other site 204722001892 hinge residues; other site 204722001893 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001894 dimer interface [polypeptide binding]; other site 204722001895 conserved gate region; other site 204722001896 putative PBP binding loops; other site 204722001897 ABC-ATPase subunit interface; other site 204722001898 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 204722001899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722001900 Walker A/P-loop; other site 204722001901 ATP binding site [chemical binding]; other site 204722001902 Q-loop/lid; other site 204722001903 ABC transporter signature motif; other site 204722001904 Walker B; other site 204722001905 D-loop; other site 204722001906 H-loop/switch region; other site 204722001907 exopolyphosphatase; Region: exo_poly_only; TIGR03706 204722001908 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 204722001909 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 204722001910 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 204722001911 S-adenosylmethionine binding site [chemical binding]; other site 204722001912 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722001913 putative transporter; Provisional; Region: PRK10504 204722001914 putative substrate translocation pore; other site 204722001915 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722001916 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 204722001917 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001918 dimer interface [polypeptide binding]; other site 204722001919 conserved gate region; other site 204722001920 putative PBP binding loops; other site 204722001921 ABC-ATPase subunit interface; other site 204722001922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001923 dimer interface [polypeptide binding]; other site 204722001924 conserved gate region; other site 204722001925 putative PBP binding loops; other site 204722001926 ABC-ATPase subunit interface; other site 204722001927 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 204722001928 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 204722001929 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 204722001930 active site 204722001931 homopentamer interface [polypeptide binding]; other site 204722001932 dimer interface [polypeptide binding]; other site 204722001933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 204722001934 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 204722001935 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001936 dimer interface [polypeptide binding]; other site 204722001937 conserved gate region; other site 204722001938 putative PBP binding loops; other site 204722001939 ABC-ATPase subunit interface; other site 204722001940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722001941 dimer interface [polypeptide binding]; other site 204722001942 conserved gate region; other site 204722001943 putative PBP binding loops; other site 204722001944 ABC-ATPase subunit interface; other site 204722001945 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 204722001946 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 204722001947 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 204722001948 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 204722001949 Walker A/P-loop; other site 204722001950 ATP binding site [chemical binding]; other site 204722001951 Q-loop/lid; other site 204722001952 ABC transporter signature motif; other site 204722001953 Walker B; other site 204722001954 D-loop; other site 204722001955 H-loop/switch region; other site 204722001956 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 204722001957 hydroxyglutarate oxidase; Provisional; Region: PRK11728 204722001958 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 204722001959 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 204722001960 E-class dimer interface [polypeptide binding]; other site 204722001961 P-class dimer interface [polypeptide binding]; other site 204722001962 active site 204722001963 Cu2+ binding site [ion binding]; other site 204722001964 Zn2+ binding site [ion binding]; other site 204722001965 multicopper oxidase; Provisional; Region: PRK10965 204722001966 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 204722001967 Multicopper oxidase; Region: Cu-oxidase; pfam00394 204722001968 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 204722001969 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722001970 metabolite-proton symporter; Region: 2A0106; TIGR00883 204722001971 putative substrate translocation pore; other site 204722001972 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 204722001973 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 204722001974 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 204722001975 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 204722001976 dimer interface [polypeptide binding]; other site 204722001977 decamer (pentamer of dimers) interface [polypeptide binding]; other site 204722001978 catalytic triad [active] 204722001979 peroxidatic and resolving cysteines [active] 204722001980 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 204722001981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722001982 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 204722001983 dimerization interface [polypeptide binding]; other site 204722001984 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 204722001985 HTH DNA binding domain; Region: HTH_13; pfam11972 204722001986 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722001987 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722001988 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 204722001989 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 204722001990 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 204722001991 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 204722001992 putative active site [active] 204722001993 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 204722001994 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 204722001995 PYR/PP interface [polypeptide binding]; other site 204722001996 dimer interface [polypeptide binding]; other site 204722001997 TPP binding site [chemical binding]; other site 204722001998 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 204722001999 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 204722002000 TPP-binding site [chemical binding]; other site 204722002001 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 204722002002 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 204722002003 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 204722002004 active site 204722002005 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 204722002006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722002007 Walker A/P-loop; other site 204722002008 ATP binding site [chemical binding]; other site 204722002009 Q-loop/lid; other site 204722002010 ABC transporter signature motif; other site 204722002011 Walker B; other site 204722002012 D-loop; other site 204722002013 H-loop/switch region; other site 204722002014 TOBE domain; Region: TOBE_2; pfam08402 204722002015 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 204722002016 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002017 dimer interface [polypeptide binding]; other site 204722002018 conserved gate region; other site 204722002019 putative PBP binding loops; other site 204722002020 ABC-ATPase subunit interface; other site 204722002021 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002022 dimer interface [polypeptide binding]; other site 204722002023 conserved gate region; other site 204722002024 putative PBP binding loops; other site 204722002025 ABC-ATPase subunit interface; other site 204722002026 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 204722002027 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 204722002028 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 204722002029 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 204722002030 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 204722002031 Glutamate binding site [chemical binding]; other site 204722002032 NAD binding site [chemical binding]; other site 204722002033 catalytic residues [active] 204722002034 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 204722002035 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 204722002036 putative DNA binding site [nucleotide binding]; other site 204722002037 putative Zn2+ binding site [ion binding]; other site 204722002038 AsnC family; Region: AsnC_trans_reg; pfam01037 204722002039 glycine dehydrogenase; Provisional; Region: PRK05367 204722002040 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 204722002041 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204722002042 catalytic residue [active] 204722002043 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 204722002044 tetramer interface [polypeptide binding]; other site 204722002045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722002046 catalytic residue [active] 204722002047 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 204722002048 lipoyl attachment site [posttranslational modification]; other site 204722002049 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 204722002050 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 204722002051 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 204722002052 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 204722002053 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204722002054 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204722002055 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 204722002056 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 204722002057 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 204722002058 putative active site [active] 204722002059 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 204722002060 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 204722002061 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 204722002062 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 204722002063 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 204722002064 putative active site [active] 204722002065 metal binding site [ion binding]; metal-binding site 204722002066 BA14K-like protein; Region: BA14K; pfam07886 204722002067 EamA-like transporter family; Region: EamA; pfam00892 204722002068 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 204722002069 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 204722002070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002071 dimer interface [polypeptide binding]; other site 204722002072 conserved gate region; other site 204722002073 putative PBP binding loops; other site 204722002074 ABC-ATPase subunit interface; other site 204722002075 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 204722002076 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 204722002077 Walker A/P-loop; other site 204722002078 ATP binding site [chemical binding]; other site 204722002079 Q-loop/lid; other site 204722002080 ABC transporter signature motif; other site 204722002081 Walker B; other site 204722002082 D-loop; other site 204722002083 H-loop/switch region; other site 204722002084 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 204722002085 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 204722002086 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 204722002087 dimer interface [polypeptide binding]; other site 204722002088 active site 204722002089 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204722002090 substrate binding site [chemical binding]; other site 204722002091 catalytic residue [active] 204722002092 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 204722002093 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 204722002094 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 204722002095 putative active site [active] 204722002096 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 204722002097 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 204722002098 Walker A/P-loop; other site 204722002099 ATP binding site [chemical binding]; other site 204722002100 Q-loop/lid; other site 204722002101 ABC transporter signature motif; other site 204722002102 Walker B; other site 204722002103 D-loop; other site 204722002104 H-loop/switch region; other site 204722002105 TOBE domain; Region: TOBE_2; pfam08402 204722002106 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 204722002107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204722002108 NAD(P) binding site [chemical binding]; other site 204722002109 active site 204722002110 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 204722002111 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 204722002112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002113 dimer interface [polypeptide binding]; other site 204722002114 conserved gate region; other site 204722002115 putative PBP binding loops; other site 204722002116 ABC-ATPase subunit interface; other site 204722002117 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 204722002118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002119 dimer interface [polypeptide binding]; other site 204722002120 conserved gate region; other site 204722002121 putative PBP binding loops; other site 204722002122 ABC-ATPase subunit interface; other site 204722002123 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 204722002124 homotrimer interaction site [polypeptide binding]; other site 204722002125 putative active site [active] 204722002126 Uncharacterized conserved protein [Function unknown]; Region: COG5476 204722002127 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 204722002128 MlrC C-terminus; Region: MlrC_C; pfam07171 204722002129 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 204722002130 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 204722002131 Walker A/P-loop; other site 204722002132 ATP binding site [chemical binding]; other site 204722002133 Q-loop/lid; other site 204722002134 ABC transporter signature motif; other site 204722002135 Walker B; other site 204722002136 D-loop; other site 204722002137 H-loop/switch region; other site 204722002138 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 204722002139 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 204722002140 ABC-ATPase subunit interface; other site 204722002141 dimer interface [polypeptide binding]; other site 204722002142 putative PBP binding regions; other site 204722002143 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 204722002144 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 204722002145 putative ligand binding residues [chemical binding]; other site 204722002146 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 204722002147 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722002148 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722002149 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 204722002150 Fusaric acid resistance protein family; Region: FUSC; pfam04632 204722002151 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 204722002152 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 204722002153 MarR family; Region: MarR_2; pfam12802 204722002154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 204722002155 RNA methyltransferase, RsmE family; Region: TIGR00046 204722002156 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 204722002157 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 204722002158 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 204722002159 generic binding surface II; other site 204722002160 generic binding surface I; other site 204722002161 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204722002162 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722002163 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 204722002164 dimerization interface [polypeptide binding]; other site 204722002165 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 204722002166 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 204722002167 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 204722002168 hypothetical protein; Reviewed; Region: PRK12275 204722002169 four helix bundle protein; Region: TIGR02436 204722002170 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 204722002171 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 204722002172 Transcriptional regulators [Transcription]; Region: MarR; COG1846 204722002173 Hint domain; Region: Hint_2; pfam13403 204722002174 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204722002175 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 204722002176 putative DNA binding site [nucleotide binding]; other site 204722002177 putative Zn2+ binding site [ion binding]; other site 204722002178 AsnC family; Region: AsnC_trans_reg; pfam01037 204722002179 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 204722002180 Predicted membrane protein [Function unknown]; Region: COG4541 204722002181 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 204722002182 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 204722002183 putative NAD(P) binding site [chemical binding]; other site 204722002184 active site 204722002185 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 204722002186 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 204722002187 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 204722002188 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 204722002189 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 204722002190 putative active site [active] 204722002191 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 204722002192 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 204722002193 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 204722002194 homodimer interface [polypeptide binding]; other site 204722002195 NADP binding site [chemical binding]; other site 204722002196 substrate binding site [chemical binding]; other site 204722002197 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 204722002198 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 204722002199 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 204722002200 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002201 dimer interface [polypeptide binding]; other site 204722002202 conserved gate region; other site 204722002203 putative PBP binding loops; other site 204722002204 ABC-ATPase subunit interface; other site 204722002205 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 204722002206 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002207 dimer interface [polypeptide binding]; other site 204722002208 conserved gate region; other site 204722002209 putative PBP binding loops; other site 204722002210 ABC-ATPase subunit interface; other site 204722002211 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 204722002212 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_13; cd08517 204722002213 Eukaryotic translation initiation factor 3 subunit 8 N-terminus; Region: eIF-3c_N; pfam05470 204722002214 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 204722002215 active site clefts [active] 204722002216 zinc binding site [ion binding]; other site 204722002217 dimer interface [polypeptide binding]; other site 204722002218 tellurite resistance protein terB; Region: terB; cd07176 204722002219 putative metal binding site [ion binding]; other site 204722002220 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 204722002221 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204722002222 active site 204722002223 nucleotide binding site [chemical binding]; other site 204722002224 HIGH motif; other site 204722002225 KMSKS motif; other site 204722002226 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 204722002227 Predicted transcriptional regulator [Transcription]; Region: COG2932 204722002228 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 204722002229 Catalytic site [active] 204722002230 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 204722002231 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 204722002232 substrate binding site [chemical binding]; other site 204722002233 oxyanion hole (OAH) forming residues; other site 204722002234 trimer interface [polypeptide binding]; other site 204722002235 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 204722002236 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 204722002237 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 204722002238 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 204722002239 dimer interface [polypeptide binding]; other site 204722002240 active site 204722002241 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 204722002242 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 204722002243 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 204722002244 FAD binding site [chemical binding]; other site 204722002245 substrate binding site [chemical binding]; other site 204722002246 catalytic residues [active] 204722002247 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 204722002248 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 204722002249 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 204722002250 active site 204722002251 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 204722002252 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722002253 Walker A/P-loop; other site 204722002254 ATP binding site [chemical binding]; other site 204722002255 Q-loop/lid; other site 204722002256 ABC transporter signature motif; other site 204722002257 Walker B; other site 204722002258 D-loop; other site 204722002259 H-loop/switch region; other site 204722002260 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 204722002261 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722002262 Walker A/P-loop; other site 204722002263 ATP binding site [chemical binding]; other site 204722002264 Q-loop/lid; other site 204722002265 ABC transporter signature motif; other site 204722002266 Walker B; other site 204722002267 D-loop; other site 204722002268 H-loop/switch region; other site 204722002269 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 204722002270 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002271 dimer interface [polypeptide binding]; other site 204722002272 conserved gate region; other site 204722002273 putative PBP binding loops; other site 204722002274 ABC-ATPase subunit interface; other site 204722002275 nickel transporter permease NikB; Provisional; Region: PRK10352 204722002276 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002277 dimer interface [polypeptide binding]; other site 204722002278 conserved gate region; other site 204722002279 putative PBP binding loops; other site 204722002280 ABC-ATPase subunit interface; other site 204722002281 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 204722002282 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 204722002283 substrate binding site [chemical binding]; other site 204722002284 nickel responsive regulator; Provisional; Region: PRK02967 204722002285 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 204722002286 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 204722002287 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 204722002288 galactarate dehydratase; Region: galactar-dH20; TIGR03248 204722002289 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 204722002290 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 204722002291 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002292 dimer interface [polypeptide binding]; other site 204722002293 conserved gate region; other site 204722002294 putative PBP binding loops; other site 204722002295 ABC-ATPase subunit interface; other site 204722002296 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 204722002297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722002298 Walker A/P-loop; other site 204722002299 ATP binding site [chemical binding]; other site 204722002300 Q-loop/lid; other site 204722002301 ABC transporter signature motif; other site 204722002302 Walker B; other site 204722002303 D-loop; other site 204722002304 H-loop/switch region; other site 204722002305 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 204722002306 hypothetical protein; Provisional; Region: PRK11622 204722002307 glucuronate isomerase; Reviewed; Region: PRK02925 204722002308 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 204722002309 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204722002310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722002311 DNA-binding site [nucleotide binding]; DNA binding site 204722002312 FCD domain; Region: FCD; pfam07729 204722002313 mannonate dehydratase; Region: uxuA; TIGR00695 204722002314 mannonate dehydratase; Provisional; Region: PRK03906 204722002315 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204722002316 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722002317 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722002318 camphor resistance protein CrcB; Provisional; Region: PRK14233 204722002319 camphor resistance protein CrcB; Provisional; Region: PRK14225 204722002320 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 204722002321 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 204722002322 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 204722002323 DNA binding residues [nucleotide binding] 204722002324 putative dimer interface [polypeptide binding]; other site 204722002325 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 204722002326 Sel1-like repeats; Region: SEL1; smart00671 204722002327 Sel1-like repeats; Region: SEL1; smart00671 204722002328 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 204722002329 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204722002330 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 204722002331 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 204722002332 putative active site [active] 204722002333 putative metal binding site [ion binding]; other site 204722002334 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 204722002335 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 204722002336 ATP binding site [chemical binding]; other site 204722002337 putative Mg++ binding site [ion binding]; other site 204722002338 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 204722002339 nucleotide binding region [chemical binding]; other site 204722002340 ATP-binding site [chemical binding]; other site 204722002341 DEAD/H associated; Region: DEAD_assoc; pfam08494 204722002342 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 204722002343 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 204722002344 FMN binding site [chemical binding]; other site 204722002345 substrate binding site [chemical binding]; other site 204722002346 putative catalytic residue [active] 204722002347 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 204722002348 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 204722002349 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 204722002350 HsdM N-terminal domain; Region: HsdM_N; pfam12161 204722002351 Methyltransferase domain; Region: Methyltransf_26; pfam13659 204722002352 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 204722002353 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 204722002354 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 204722002355 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 204722002356 ATP binding site [chemical binding]; other site 204722002357 putative Mg++ binding site [ion binding]; other site 204722002358 helicase superfamily c-terminal domain; Region: HELICc; smart00490 204722002359 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 204722002360 Protein of unknown function DUF45; Region: DUF45; pfam01863 204722002361 Protein of unknown function DUF91; Region: DUF91; cl00709 204722002362 Uncharacterized conserved protein [Function unknown]; Region: COG3586 204722002363 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 204722002364 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 204722002365 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 204722002366 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 204722002367 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 204722002368 inhibitor-cofactor binding pocket; inhibition site 204722002369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722002370 catalytic residue [active] 204722002371 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 204722002372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204722002373 NAD(P) binding site [chemical binding]; other site 204722002374 active site 204722002375 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 204722002376 hypothetical protein; Validated; Region: PRK08238 204722002377 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 204722002378 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 204722002379 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 204722002380 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 204722002381 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 204722002382 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 204722002383 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 204722002384 ligand binding site [chemical binding]; other site 204722002385 dimerization interface [polypeptide binding]; other site 204722002386 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 204722002387 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722002388 TM-ABC transporter signature motif; other site 204722002389 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 204722002390 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 204722002391 Walker A/P-loop; other site 204722002392 ATP binding site [chemical binding]; other site 204722002393 Q-loop/lid; other site 204722002394 ABC transporter signature motif; other site 204722002395 Walker B; other site 204722002396 D-loop; other site 204722002397 H-loop/switch region; other site 204722002398 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 204722002399 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 204722002400 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 204722002401 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 204722002402 putative N- and C-terminal domain interface [polypeptide binding]; other site 204722002403 putative active site [active] 204722002404 MgATP binding site [chemical binding]; other site 204722002405 catalytic site [active] 204722002406 metal binding site [ion binding]; metal-binding site 204722002407 putative xylulose binding site [chemical binding]; other site 204722002408 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 204722002409 hydroxyglutarate oxidase; Provisional; Region: PRK11728 204722002410 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 204722002411 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 204722002412 PCI domain; Region: PCI; cl02111 204722002413 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 204722002414 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 204722002415 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 204722002416 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 204722002417 triosephosphate isomerase; Provisional; Region: PRK14565 204722002418 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 204722002419 substrate binding site [chemical binding]; other site 204722002420 dimer interface [polypeptide binding]; other site 204722002421 catalytic triad [active] 204722002422 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 204722002423 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 204722002424 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 204722002425 intersubunit interface [polypeptide binding]; other site 204722002426 active site 204722002427 zinc binding site [ion binding]; other site 204722002428 Na+ binding site [ion binding]; other site 204722002429 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 204722002430 AMP binding site [chemical binding]; other site 204722002431 metal binding site [ion binding]; metal-binding site 204722002432 active site 204722002433 Uncharacterized conserved protein [Function unknown]; Region: COG1739 204722002434 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 204722002435 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 204722002436 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 204722002437 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 204722002438 G1 box; other site 204722002439 putative GEF interaction site [polypeptide binding]; other site 204722002440 GTP/Mg2+ binding site [chemical binding]; other site 204722002441 Switch I region; other site 204722002442 G2 box; other site 204722002443 G3 box; other site 204722002444 Switch II region; other site 204722002445 G4 box; other site 204722002446 G5 box; other site 204722002447 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 204722002448 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 204722002449 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 204722002450 MgtE intracellular N domain; Region: MgtE_N; pfam03448 204722002451 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 204722002452 Divalent cation transporter; Region: MgtE; pfam01769 204722002453 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 204722002454 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 204722002455 active site 204722002456 Zn binding site [ion binding]; other site 204722002457 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 204722002458 dimer interface [polypeptide binding]; other site 204722002459 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722002460 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 204722002461 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 204722002462 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 204722002463 substrate binding site [chemical binding]; other site 204722002464 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 204722002465 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 204722002466 Transcriptional regulators [Transcription]; Region: MarR; COG1846 204722002467 MarR family; Region: MarR; pfam01047 204722002468 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 204722002469 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 204722002470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722002471 putative substrate translocation pore; other site 204722002472 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 204722002473 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 204722002474 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 204722002475 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 204722002476 DNA binding site [nucleotide binding] 204722002477 active site 204722002478 tartrate dehydrogenase; Region: TTC; TIGR02089 204722002479 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 204722002480 Uncharacterized conserved protein [Function unknown]; Region: COG2835 204722002481 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 204722002482 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 204722002483 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 204722002484 catalytic residues [active] 204722002485 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 204722002486 putative deacylase active site [active] 204722002487 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 204722002488 apolar tunnel; other site 204722002489 heme binding site [chemical binding]; other site 204722002490 dimerization interface [polypeptide binding]; other site 204722002491 ornithine cyclodeaminase; Validated; Region: PRK07589 204722002492 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 204722002493 Arginase family; Region: Arginase; cd09989 204722002494 agmatinase; Region: agmatinase; TIGR01230 204722002495 active site 204722002496 Mn binding site [ion binding]; other site 204722002497 oligomer interface [polypeptide binding]; other site 204722002498 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204722002499 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 204722002500 AsnC family; Region: AsnC_trans_reg; pfam01037 204722002501 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 204722002502 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 204722002503 FMN binding site [chemical binding]; other site 204722002504 active site 204722002505 substrate binding site [chemical binding]; other site 204722002506 catalytic residue [active] 204722002507 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 204722002508 dimerization interface [polypeptide binding]; other site 204722002509 putative DNA binding site [nucleotide binding]; other site 204722002510 putative Zn2+ binding site [ion binding]; other site 204722002511 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 204722002512 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 204722002513 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 204722002514 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 204722002515 RNA binding site [nucleotide binding]; other site 204722002516 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 204722002517 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 204722002518 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 204722002519 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 204722002520 putative Zn2+ binding site [ion binding]; other site 204722002521 putative DNA binding site [nucleotide binding]; other site 204722002522 dimerization interface [polypeptide binding]; other site 204722002523 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 204722002524 dimerization interface [polypeptide binding]; other site 204722002525 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 204722002526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 204722002527 aldehyde dehydrogenase family 7 member; Region: PLN02315 204722002528 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 204722002529 tetrameric interface [polypeptide binding]; other site 204722002530 NAD binding site [chemical binding]; other site 204722002531 catalytic residues [active] 204722002532 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 204722002533 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 204722002534 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 204722002535 putative active site [active] 204722002536 putative substrate binding site [chemical binding]; other site 204722002537 putative cosubstrate binding site; other site 204722002538 catalytic site [active] 204722002539 hypothetical protein; Provisional; Region: PRK02947 204722002540 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 204722002541 putative active site [active] 204722002542 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 204722002543 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 204722002544 active site 204722002545 dimer interface [polypeptide binding]; other site 204722002546 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 204722002547 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 204722002548 dimer interface [polypeptide binding]; other site 204722002549 active site 204722002550 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 204722002551 dimer interface [polypeptide binding]; other site 204722002552 active site 204722002553 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 204722002554 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722002555 DNA-binding site [nucleotide binding]; DNA binding site 204722002556 UTRA domain; Region: UTRA; pfam07702 204722002557 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 204722002558 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204722002559 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722002560 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722002561 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204722002562 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722002563 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722002564 putative membrane fusion protein; Region: TIGR02828 204722002565 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 204722002566 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 204722002567 putative molybdopterin cofactor binding site [chemical binding]; other site 204722002568 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 204722002569 putative molybdopterin cofactor binding site; other site 204722002570 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 204722002571 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 204722002572 phosphate binding site [ion binding]; other site 204722002573 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204722002574 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204722002575 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 204722002576 putative DNA binding site [nucleotide binding]; other site 204722002577 putative Zn2+ binding site [ion binding]; other site 204722002578 AsnC family; Region: AsnC_trans_reg; pfam01037 204722002579 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 204722002580 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 204722002581 active site 204722002582 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204722002583 dimer interface [polypeptide binding]; other site 204722002584 substrate binding site [chemical binding]; other site 204722002585 catalytic residues [active] 204722002586 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 204722002587 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204722002588 hydroxyglutarate oxidase; Provisional; Region: PRK11728 204722002589 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 204722002590 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 204722002591 non-specific DNA binding site [nucleotide binding]; other site 204722002592 salt bridge; other site 204722002593 sequence-specific DNA binding site [nucleotide binding]; other site 204722002594 Cupin domain; Region: Cupin_2; pfam07883 204722002595 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 204722002596 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 204722002597 inhibitor-cofactor binding pocket; inhibition site 204722002598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722002599 catalytic residue [active] 204722002600 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 204722002601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722002602 DNA-binding site [nucleotide binding]; DNA binding site 204722002603 UTRA domain; Region: UTRA; pfam07702 204722002604 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 204722002605 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 204722002606 active site 204722002607 imidazolonepropionase; Validated; Region: PRK09356 204722002608 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 204722002609 active site 204722002610 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 204722002611 active sites [active] 204722002612 tetramer interface [polypeptide binding]; other site 204722002613 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 204722002614 urocanate hydratase; Provisional; Region: PRK05414 204722002615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 204722002616 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 204722002617 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 204722002618 homodimer interface [polypeptide binding]; other site 204722002619 substrate-cofactor binding pocket; other site 204722002620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722002621 catalytic residue [active] 204722002622 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 204722002623 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 204722002624 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722002625 TM-ABC transporter signature motif; other site 204722002626 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 204722002627 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 204722002628 Walker A/P-loop; other site 204722002629 ATP binding site [chemical binding]; other site 204722002630 Q-loop/lid; other site 204722002631 ABC transporter signature motif; other site 204722002632 Walker B; other site 204722002633 D-loop; other site 204722002634 H-loop/switch region; other site 204722002635 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 204722002636 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 204722002637 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 204722002638 putative ligand binding site [chemical binding]; other site 204722002639 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 204722002640 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 204722002641 active site 204722002642 intersubunit interface [polypeptide binding]; other site 204722002643 catalytic residue [active] 204722002644 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 204722002645 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 204722002646 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 204722002647 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722002648 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722002649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 204722002650 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 204722002651 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 204722002652 thiamine pyrophosphate protein; Validated; Region: PRK08199 204722002653 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 204722002654 PYR/PP interface [polypeptide binding]; other site 204722002655 dimer interface [polypeptide binding]; other site 204722002656 TPP binding site [chemical binding]; other site 204722002657 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 204722002658 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 204722002659 TPP-binding site [chemical binding]; other site 204722002660 D-aminopeptidase; Reviewed; Region: PRK13128 204722002661 Beta-lactamase; Region: Beta-lactamase; pfam00144 204722002662 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 204722002663 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 204722002664 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 204722002665 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 204722002666 substrate binding pocket [chemical binding]; other site 204722002667 membrane-bound complex binding site; other site 204722002668 hinge residues; other site 204722002669 hypothetical protein; Provisional; Region: PRK06148 204722002670 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 204722002671 active site 204722002672 substrate binding site [chemical binding]; other site 204722002673 ATP binding site [chemical binding]; other site 204722002674 Peptidase family M23; Region: Peptidase_M23; pfam01551 204722002675 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 204722002676 inhibitor-cofactor binding pocket; inhibition site 204722002677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722002678 catalytic residue [active] 204722002679 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204722002680 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 204722002681 AsnC family; Region: AsnC_trans_reg; pfam01037 204722002682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204722002683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722002684 LysR substrate binding domain; Region: LysR_substrate; pfam03466 204722002685 dimerization interface [polypeptide binding]; other site 204722002686 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 204722002687 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 204722002688 putative ligand binding site [chemical binding]; other site 204722002689 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204722002690 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204722002691 Walker A/P-loop; other site 204722002692 ATP binding site [chemical binding]; other site 204722002693 Q-loop/lid; other site 204722002694 ABC transporter signature motif; other site 204722002695 Walker B; other site 204722002696 D-loop; other site 204722002697 H-loop/switch region; other site 204722002698 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204722002699 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204722002700 Walker A/P-loop; other site 204722002701 ATP binding site [chemical binding]; other site 204722002702 Q-loop/lid; other site 204722002703 ABC transporter signature motif; other site 204722002704 Walker B; other site 204722002705 D-loop; other site 204722002706 H-loop/switch region; other site 204722002707 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 204722002708 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722002709 TM-ABC transporter signature motif; other site 204722002710 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 204722002711 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 204722002712 TM-ABC transporter signature motif; other site 204722002713 choline dehydrogenase; Validated; Region: PRK02106 204722002714 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 204722002715 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 204722002716 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 204722002717 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 204722002718 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 204722002719 Walker A/P-loop; other site 204722002720 ATP binding site [chemical binding]; other site 204722002721 Q-loop/lid; other site 204722002722 ABC transporter signature motif; other site 204722002723 Walker B; other site 204722002724 D-loop; other site 204722002725 H-loop/switch region; other site 204722002726 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 204722002727 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002728 dimer interface [polypeptide binding]; other site 204722002729 conserved gate region; other site 204722002730 ABC-ATPase subunit interface; other site 204722002731 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 204722002732 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722002733 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 204722002734 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 204722002735 TPR motif; other site 204722002736 binding surface 204722002737 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 204722002738 binding surface 204722002739 TPR motif; other site 204722002740 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 204722002741 binding surface 204722002742 TPR motif; other site 204722002743 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 204722002744 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 204722002745 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 204722002746 putative active site [active] 204722002747 putative catalytic site [active] 204722002748 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 204722002749 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 204722002750 motif II; other site 204722002751 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 204722002752 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 204722002753 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 204722002754 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 204722002755 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 204722002756 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 204722002757 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 204722002758 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 204722002759 ligand binding site [chemical binding]; other site 204722002760 homodimer interface [polypeptide binding]; other site 204722002761 NAD(P) binding site [chemical binding]; other site 204722002762 trimer interface B [polypeptide binding]; other site 204722002763 trimer interface A [polypeptide binding]; other site 204722002764 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 204722002765 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 204722002766 PAS fold; Region: PAS_7; pfam12860 204722002767 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204722002768 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204722002769 metal binding site [ion binding]; metal-binding site 204722002770 active site 204722002771 I-site; other site 204722002772 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 204722002773 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 204722002774 classical (c) SDRs; Region: SDR_c; cd05233 204722002775 NAD(P) binding site [chemical binding]; other site 204722002776 active site 204722002777 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 204722002778 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 204722002779 catalytic triad [active] 204722002780 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 204722002781 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 204722002782 putative ligand binding site [chemical binding]; other site 204722002783 NAD binding site [chemical binding]; other site 204722002784 catalytic site [active] 204722002785 Transcriptional regulators [Transcription]; Region: PurR; COG1609 204722002786 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 204722002787 DNA binding site [nucleotide binding] 204722002788 domain linker motif; other site 204722002789 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 204722002790 putative dimerization interface [polypeptide binding]; other site 204722002791 putative ligand binding site [chemical binding]; other site 204722002792 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 204722002793 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 204722002794 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 204722002795 P-loop, Walker A motif; other site 204722002796 Base recognition motif; other site 204722002797 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 204722002798 FOG: WD40 repeat [General function prediction only]; Region: COG2319 204722002799 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 204722002800 structural tetrad; other site 204722002801 Predicted esterase [General function prediction only]; Region: COG0400 204722002802 putative hydrolase; Provisional; Region: PRK11460 204722002803 TMAO/DMSO reductase; Reviewed; Region: PRK05363 204722002804 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 204722002805 Moco binding site; other site 204722002806 metal coordination site [ion binding]; other site 204722002807 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 204722002808 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 204722002809 homotrimer interaction site [polypeptide binding]; other site 204722002810 putative active site [active] 204722002811 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722002812 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 204722002813 TM-ABC transporter signature motif; other site 204722002814 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 204722002815 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722002816 TM-ABC transporter signature motif; other site 204722002817 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 204722002818 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 204722002819 Walker A/P-loop; other site 204722002820 ATP binding site [chemical binding]; other site 204722002821 Q-loop/lid; other site 204722002822 ABC transporter signature motif; other site 204722002823 Walker B; other site 204722002824 D-loop; other site 204722002825 H-loop/switch region; other site 204722002826 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 204722002827 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 204722002828 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 204722002829 putative ligand binding site [chemical binding]; other site 204722002830 Transcriptional regulator [Transcription]; Region: IclR; COG1414 204722002831 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 204722002832 Bacterial transcriptional regulator; Region: IclR; pfam01614 204722002833 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 204722002834 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 204722002835 N-terminal plug; other site 204722002836 ligand-binding site [chemical binding]; other site 204722002837 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 204722002838 dimer interface [polypeptide binding]; other site 204722002839 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722002840 metal binding site [ion binding]; metal-binding site 204722002841 glutathionine S-transferase; Provisional; Region: PRK10542 204722002842 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 204722002843 C-terminal domain interface [polypeptide binding]; other site 204722002844 GSH binding site (G-site) [chemical binding]; other site 204722002845 dimer interface [polypeptide binding]; other site 204722002846 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 204722002847 dimer interface [polypeptide binding]; other site 204722002848 N-terminal domain interface [polypeptide binding]; other site 204722002849 substrate binding pocket (H-site) [chemical binding]; other site 204722002850 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 204722002851 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204722002852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204722002853 metal binding site [ion binding]; metal-binding site 204722002854 active site 204722002855 I-site; other site 204722002856 Predicted dehydrogenase [General function prediction only]; Region: COG0579 204722002857 hydroxyglutarate oxidase; Provisional; Region: PRK11728 204722002858 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 204722002859 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 204722002860 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 204722002861 active site 204722002862 catalytic site [active] 204722002863 substrate binding site [chemical binding]; other site 204722002864 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 204722002865 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722002866 Walker A/P-loop; other site 204722002867 ATP binding site [chemical binding]; other site 204722002868 Q-loop/lid; other site 204722002869 ABC transporter signature motif; other site 204722002870 Walker B; other site 204722002871 D-loop; other site 204722002872 H-loop/switch region; other site 204722002873 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 204722002874 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 204722002875 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722002876 Walker A/P-loop; other site 204722002877 ATP binding site [chemical binding]; other site 204722002878 Q-loop/lid; other site 204722002879 ABC transporter signature motif; other site 204722002880 Walker B; other site 204722002881 D-loop; other site 204722002882 H-loop/switch region; other site 204722002883 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 204722002884 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 204722002885 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002886 dimer interface [polypeptide binding]; other site 204722002887 conserved gate region; other site 204722002888 putative PBP binding loops; other site 204722002889 ABC-ATPase subunit interface; other site 204722002890 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 204722002891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722002892 dimer interface [polypeptide binding]; other site 204722002893 conserved gate region; other site 204722002894 putative PBP binding loops; other site 204722002895 ABC-ATPase subunit interface; other site 204722002896 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 204722002897 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_6; cd08494 204722002898 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 204722002899 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 204722002900 putative NAD(P) binding site [chemical binding]; other site 204722002901 active site 204722002902 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722002903 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 204722002904 NAD(P) binding site [chemical binding]; other site 204722002905 catalytic residues [active] 204722002906 catalytic residues [active] 204722002907 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204722002908 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722002909 DNA-binding site [nucleotide binding]; DNA binding site 204722002910 FCD domain; Region: FCD; pfam07729 204722002911 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722002912 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204722002913 putative substrate translocation pore; other site 204722002914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722002915 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 204722002916 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 204722002917 homotrimer interaction site [polypeptide binding]; other site 204722002918 putative active site [active] 204722002919 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 204722002920 ribonuclease P; Reviewed; Region: rnpA; PRK01313 204722002921 membrane protein insertase; Provisional; Region: PRK01318 204722002922 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 204722002923 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 204722002924 G1 box; other site 204722002925 GTP/Mg2+ binding site [chemical binding]; other site 204722002926 Switch I region; other site 204722002927 G2 box; other site 204722002928 G3 box; other site 204722002929 Switch II region; other site 204722002930 G4 box; other site 204722002931 G5 box; other site 204722002932 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 204722002933 homohexameric interface [polypeptide binding]; other site 204722002934 feedback inhibition sensing region; other site 204722002935 nucleotide binding site [chemical binding]; other site 204722002936 N-acetyl-L-glutamate binding site [chemical binding]; other site 204722002937 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 204722002938 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 204722002939 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 204722002940 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 204722002941 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 204722002942 trimer interface [polypeptide binding]; other site 204722002943 active site 204722002944 substrate binding site [chemical binding]; other site 204722002945 CoA binding site [chemical binding]; other site 204722002946 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 204722002947 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 204722002948 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 204722002949 metal binding site [ion binding]; metal-binding site 204722002950 dimer interface [polypeptide binding]; other site 204722002951 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 204722002952 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 204722002953 dimerization interface 3.5A [polypeptide binding]; other site 204722002954 active site 204722002955 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 204722002956 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 204722002957 putative active site [active] 204722002958 substrate binding site [chemical binding]; other site 204722002959 putative cosubstrate binding site; other site 204722002960 catalytic site [active] 204722002961 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 204722002962 substrate binding site [chemical binding]; other site 204722002963 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 204722002964 active site 204722002965 catalytic residues [active] 204722002966 metal binding site [ion binding]; metal-binding site 204722002967 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 204722002968 RmuC family; Region: RmuC; pfam02646 204722002969 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 204722002970 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 204722002971 GIY-YIG motif/motif A; other site 204722002972 putative active site [active] 204722002973 putative metal binding site [ion binding]; other site 204722002974 GTP-binding protein LepA; Provisional; Region: PRK05433 204722002975 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 204722002976 G1 box; other site 204722002977 putative GEF interaction site [polypeptide binding]; other site 204722002978 GTP/Mg2+ binding site [chemical binding]; other site 204722002979 Switch I region; other site 204722002980 G2 box; other site 204722002981 G3 box; other site 204722002982 Switch II region; other site 204722002983 G4 box; other site 204722002984 G5 box; other site 204722002985 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 204722002986 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 204722002987 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 204722002988 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 204722002989 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 204722002990 putative NAD(P) binding site [chemical binding]; other site 204722002991 active site 204722002992 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 204722002993 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 204722002994 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 204722002995 C-terminal domain interface [polypeptide binding]; other site 204722002996 GSH binding site (G-site) [chemical binding]; other site 204722002997 dimer interface [polypeptide binding]; other site 204722002998 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 204722002999 N-terminal domain interface [polypeptide binding]; other site 204722003000 dimer interface [polypeptide binding]; other site 204722003001 substrate binding pocket (H-site) [chemical binding]; other site 204722003002 epoxyqueuosine reductase; Region: TIGR00276 204722003003 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 204722003004 HEAT repeat; Region: HEAT; pfam02985 204722003005 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 204722003006 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 204722003007 putative NAD(P) binding site [chemical binding]; other site 204722003008 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 204722003009 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 204722003010 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 204722003011 active site 204722003012 dimer interfaces [polypeptide binding]; other site 204722003013 catalytic residues [active] 204722003014 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 204722003015 glucokinase, proteobacterial type; Region: glk; TIGR00749 204722003016 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 204722003017 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204722003018 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 204722003019 Walker A/P-loop; other site 204722003020 ATP binding site [chemical binding]; other site 204722003021 Q-loop/lid; other site 204722003022 ABC transporter signature motif; other site 204722003023 Walker B; other site 204722003024 D-loop; other site 204722003025 H-loop/switch region; other site 204722003026 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 204722003027 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 204722003028 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 204722003029 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 204722003030 catalytic core [active] 204722003031 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 204722003032 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 204722003033 active site 204722003034 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 204722003035 putative FMN binding site [chemical binding]; other site 204722003036 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 204722003037 Ligand Binding Site [chemical binding]; other site 204722003038 Predicted membrane protein [Function unknown]; Region: COG3714 204722003039 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 204722003040 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 204722003041 NAD(P) binding site [chemical binding]; other site 204722003042 catalytic residues [active] 204722003043 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 204722003044 putative catalytic site [active] 204722003045 putative metal binding site [ion binding]; other site 204722003046 putative phosphate binding site [ion binding]; other site 204722003047 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 204722003048 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 204722003049 putative active site [active] 204722003050 catalytic site [active] 204722003051 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 204722003052 putative active site [active] 204722003053 catalytic site [active] 204722003054 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 204722003055 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 204722003056 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 204722003057 G1 box; other site 204722003058 putative GEF interaction site [polypeptide binding]; other site 204722003059 GTP/Mg2+ binding site [chemical binding]; other site 204722003060 Switch I region; other site 204722003061 G2 box; other site 204722003062 G3 box; other site 204722003063 Switch II region; other site 204722003064 G4 box; other site 204722003065 G5 box; other site 204722003066 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 204722003067 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 204722003068 Flavoprotein; Region: Flavoprotein; pfam02441 204722003069 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 204722003070 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 204722003071 ABC1 family; Region: ABC1; pfam03109 204722003072 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; cd05120 204722003073 active site 204722003074 ATP binding site [chemical binding]; other site 204722003075 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 204722003076 substrate binding site [chemical binding]; other site 204722003077 activation loop (A-loop); other site 204722003078 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 204722003079 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 204722003080 S-adenosylmethionine binding site [chemical binding]; other site 204722003081 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204722003082 active site 204722003083 hypothetical protein; Provisional; Region: PRK00736 204722003084 methionine sulfoxide reductase A; Provisional; Region: PRK00058 204722003085 putative transposase OrfB; Reviewed; Region: PHA02517 204722003086 HTH-like domain; Region: HTH_21; pfam13276 204722003087 Integrase core domain; Region: rve; pfam00665 204722003088 Integrase core domain; Region: rve_3; pfam13683 204722003089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204722003090 Transposase; Region: HTH_Tnp_1; pfam01527 204722003091 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204722003092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722003093 DNA-binding site [nucleotide binding]; DNA binding site 204722003094 FCD domain; Region: FCD; pfam07729 204722003095 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722003096 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 204722003097 tetramerization interface [polypeptide binding]; other site 204722003098 NAD(P) binding site [chemical binding]; other site 204722003099 catalytic residues [active] 204722003100 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 204722003101 CoA-transferase family III; Region: CoA_transf_3; pfam02515 204722003102 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 204722003103 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722003104 Walker A/P-loop; other site 204722003105 ATP binding site [chemical binding]; other site 204722003106 Q-loop/lid; other site 204722003107 ABC transporter signature motif; other site 204722003108 Walker B; other site 204722003109 D-loop; other site 204722003110 H-loop/switch region; other site 204722003111 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 204722003112 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 204722003113 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722003114 Walker A/P-loop; other site 204722003115 ATP binding site [chemical binding]; other site 204722003116 Q-loop/lid; other site 204722003117 ABC transporter signature motif; other site 204722003118 Walker B; other site 204722003119 D-loop; other site 204722003120 H-loop/switch region; other site 204722003121 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 204722003122 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 204722003123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003124 dimer interface [polypeptide binding]; other site 204722003125 conserved gate region; other site 204722003126 putative PBP binding loops; other site 204722003127 ABC-ATPase subunit interface; other site 204722003128 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 204722003129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003130 dimer interface [polypeptide binding]; other site 204722003131 conserved gate region; other site 204722003132 putative PBP binding loops; other site 204722003133 ABC-ATPase subunit interface; other site 204722003134 Transcriptional regulator [Transcription]; Region: IclR; COG1414 204722003135 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 204722003136 Bacterial transcriptional regulator; Region: IclR; pfam01614 204722003137 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 204722003138 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 204722003139 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 204722003140 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 204722003141 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 204722003142 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 204722003143 enoyl-CoA hydratase; Provisional; Region: PRK08138 204722003144 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 204722003145 substrate binding site [chemical binding]; other site 204722003146 oxyanion hole (OAH) forming residues; other site 204722003147 trimer interface [polypeptide binding]; other site 204722003148 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 204722003149 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 204722003150 active site 204722003151 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 204722003152 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 204722003153 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 204722003154 active site 204722003155 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 204722003156 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 204722003157 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_16; cd08502 204722003158 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 204722003159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003160 dimer interface [polypeptide binding]; other site 204722003161 conserved gate region; other site 204722003162 putative PBP binding loops; other site 204722003163 ABC-ATPase subunit interface; other site 204722003164 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 204722003165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003166 dimer interface [polypeptide binding]; other site 204722003167 conserved gate region; other site 204722003168 putative PBP binding loops; other site 204722003169 ABC-ATPase subunit interface; other site 204722003170 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 204722003171 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722003172 Walker A/P-loop; other site 204722003173 ATP binding site [chemical binding]; other site 204722003174 Q-loop/lid; other site 204722003175 ABC transporter signature motif; other site 204722003176 Walker B; other site 204722003177 D-loop; other site 204722003178 H-loop/switch region; other site 204722003179 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 204722003180 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204722003181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722003182 DNA-binding site [nucleotide binding]; DNA binding site 204722003183 FCD domain; Region: FCD; pfam07729 204722003184 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 204722003185 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 204722003186 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 204722003187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003188 dimer interface [polypeptide binding]; other site 204722003189 conserved gate region; other site 204722003190 putative PBP binding loops; other site 204722003191 ABC-ATPase subunit interface; other site 204722003192 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 204722003193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003194 dimer interface [polypeptide binding]; other site 204722003195 conserved gate region; other site 204722003196 putative PBP binding loops; other site 204722003197 ABC-ATPase subunit interface; other site 204722003198 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 204722003199 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722003200 Walker A/P-loop; other site 204722003201 ATP binding site [chemical binding]; other site 204722003202 Q-loop/lid; other site 204722003203 ABC transporter signature motif; other site 204722003204 Walker B; other site 204722003205 D-loop; other site 204722003206 H-loop/switch region; other site 204722003207 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 204722003208 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 204722003209 amidase; Provisional; Region: PRK07486 204722003210 Amidase; Region: Amidase; cl11426 204722003211 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 204722003212 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003213 dimer interface [polypeptide binding]; other site 204722003214 conserved gate region; other site 204722003215 putative PBP binding loops; other site 204722003216 ABC-ATPase subunit interface; other site 204722003217 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003218 dimer interface [polypeptide binding]; other site 204722003219 conserved gate region; other site 204722003220 putative PBP binding loops; other site 204722003221 ABC-ATPase subunit interface; other site 204722003222 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 204722003223 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 204722003224 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204722003225 catalytic residue [active] 204722003226 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 204722003227 intersubunit interface [polypeptide binding]; other site 204722003228 active site 204722003229 Zn2+ binding site [ion binding]; other site 204722003230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 204722003231 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 204722003232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204722003233 Transposase; Region: HTH_Tnp_1; pfam01527 204722003234 putative transposase OrfB; Reviewed; Region: PHA02517 204722003235 HTH-like domain; Region: HTH_21; pfam13276 204722003236 Integrase core domain; Region: rve; pfam00665 204722003237 Integrase core domain; Region: rve_3; pfam13683 204722003238 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 204722003239 Predicted transcriptional regulator [Transcription]; Region: COG1959 204722003240 Transcriptional regulator; Region: Rrf2; pfam02082 204722003241 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 204722003242 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 204722003243 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 204722003244 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 204722003245 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 204722003246 metal binding site [ion binding]; metal-binding site 204722003247 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 204722003248 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 204722003249 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 204722003250 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 204722003251 ABC-ATPase subunit interface; other site 204722003252 dimer interface [polypeptide binding]; other site 204722003253 putative PBP binding regions; other site 204722003254 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 204722003255 metal binding site 2 [ion binding]; metal-binding site 204722003256 putative DNA binding helix; other site 204722003257 metal binding site 1 [ion binding]; metal-binding site 204722003258 dimer interface [polypeptide binding]; other site 204722003259 structural Zn2+ binding site [ion binding]; other site 204722003260 Rod binding protein; Region: Rod-binding; pfam10135 204722003261 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 204722003262 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 204722003263 FHIPEP family; Region: FHIPEP; pfam00771 204722003264 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 204722003265 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 204722003266 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 204722003267 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 204722003268 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 204722003269 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 204722003270 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 204722003271 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 204722003272 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 204722003273 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 204722003274 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 204722003275 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 204722003276 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 204722003277 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 204722003278 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 204722003279 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204722003280 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 204722003281 DNA binding site [nucleotide binding] 204722003282 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 204722003283 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 204722003284 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204722003285 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 204722003286 flagellar motor protein MotB; Validated; Region: motB; PRK05996 204722003287 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 204722003288 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204722003289 ligand binding site [chemical binding]; other site 204722003290 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 204722003291 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 204722003292 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 204722003293 flagellin; Reviewed; Region: PRK12687 204722003294 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 204722003295 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204722003296 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204722003297 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204722003298 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 204722003299 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204722003300 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204722003301 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204722003302 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204722003303 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 204722003304 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 204722003305 Autotransporter beta-domain; Region: Autotransporter; smart00869 204722003306 Uncharacterized conserved protein [Function unknown]; Region: COG3268 204722003307 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 204722003308 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 204722003309 putative ligand binding site [chemical binding]; other site 204722003310 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 204722003311 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 204722003312 Walker A/P-loop; other site 204722003313 ATP binding site [chemical binding]; other site 204722003314 Q-loop/lid; other site 204722003315 ABC transporter signature motif; other site 204722003316 Walker B; other site 204722003317 D-loop; other site 204722003318 H-loop/switch region; other site 204722003319 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 204722003320 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722003321 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 204722003322 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 204722003323 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722003324 TM-ABC transporter signature motif; other site 204722003325 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 204722003326 HTH domain; Region: HTH_11; cl17392 204722003327 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722003328 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722003329 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 204722003330 NAD(P) binding site [chemical binding]; other site 204722003331 catalytic residues [active] 204722003332 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 204722003333 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 204722003334 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 204722003335 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 204722003336 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 204722003337 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 204722003338 NAD binding site [chemical binding]; other site 204722003339 catalytic residues [active] 204722003340 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 204722003341 putative substrate binding pocket [chemical binding]; other site 204722003342 trimer interface [polypeptide binding]; other site 204722003343 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 204722003344 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 204722003345 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 204722003346 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 204722003347 active site 204722003348 ATP binding site [chemical binding]; other site 204722003349 substrate binding site [chemical binding]; other site 204722003350 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 204722003351 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 204722003352 inhibitor-cofactor binding pocket; inhibition site 204722003353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722003354 catalytic residue [active] 204722003355 hypothetical protein; Provisional; Region: PRK07481 204722003356 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 204722003357 inhibitor-cofactor binding pocket; inhibition site 204722003358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722003359 catalytic residue [active] 204722003360 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 204722003361 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 204722003362 motif II; other site 204722003363 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 204722003364 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 204722003365 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 204722003366 Transcriptional regulator [Transcription]; Region: IclR; COG1414 204722003367 Bacterial transcriptional regulator; Region: IclR; pfam01614 204722003368 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 204722003369 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722003370 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 204722003371 NAD(P) binding site [chemical binding]; other site 204722003372 catalytic residues [active] 204722003373 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 204722003374 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 204722003375 active site 204722003376 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 204722003377 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 204722003378 putative ligand binding site [chemical binding]; other site 204722003379 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 204722003380 TM-ABC transporter signature motif; other site 204722003381 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 204722003382 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 204722003383 TM-ABC transporter signature motif; other site 204722003384 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204722003385 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204722003386 Walker A/P-loop; other site 204722003387 ATP binding site [chemical binding]; other site 204722003388 Q-loop/lid; other site 204722003389 ABC transporter signature motif; other site 204722003390 Walker B; other site 204722003391 D-loop; other site 204722003392 H-loop/switch region; other site 204722003393 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204722003394 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204722003395 Walker A/P-loop; other site 204722003396 ATP binding site [chemical binding]; other site 204722003397 Q-loop/lid; other site 204722003398 ABC transporter signature motif; other site 204722003399 Walker B; other site 204722003400 D-loop; other site 204722003401 H-loop/switch region; other site 204722003402 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 204722003403 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204722003404 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 204722003405 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722003406 DNA-binding site [nucleotide binding]; DNA binding site 204722003407 UTRA domain; Region: UTRA; pfam07702 204722003408 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 204722003409 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 204722003410 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 204722003411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003412 dimer interface [polypeptide binding]; other site 204722003413 conserved gate region; other site 204722003414 putative PBP binding loops; other site 204722003415 ABC-ATPase subunit interface; other site 204722003416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003417 dimer interface [polypeptide binding]; other site 204722003418 conserved gate region; other site 204722003419 putative PBP binding loops; other site 204722003420 ABC-ATPase subunit interface; other site 204722003421 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 204722003422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722003423 Walker A/P-loop; other site 204722003424 ATP binding site [chemical binding]; other site 204722003425 Q-loop/lid; other site 204722003426 ABC transporter signature motif; other site 204722003427 Walker B; other site 204722003428 D-loop; other site 204722003429 H-loop/switch region; other site 204722003430 TOBE domain; Region: TOBE_2; pfam08402 204722003431 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 204722003432 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 204722003433 active site 204722003434 metal binding site [ion binding]; metal-binding site 204722003435 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 204722003436 Sulfatase; Region: Sulfatase; cl17466 204722003437 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 204722003438 NMT1-like family; Region: NMT1_2; pfam13379 204722003439 substrate binding pocket [chemical binding]; other site 204722003440 membrane-bound complex binding site; other site 204722003441 hinge residues; other site 204722003442 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 204722003443 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 204722003444 Walker A/P-loop; other site 204722003445 ATP binding site [chemical binding]; other site 204722003446 Q-loop/lid; other site 204722003447 ABC transporter signature motif; other site 204722003448 Walker B; other site 204722003449 D-loop; other site 204722003450 H-loop/switch region; other site 204722003451 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 204722003452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003453 dimer interface [polypeptide binding]; other site 204722003454 conserved gate region; other site 204722003455 putative PBP binding loops; other site 204722003456 ABC-ATPase subunit interface; other site 204722003457 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 204722003458 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 204722003459 nucleotide binding site [chemical binding]; other site 204722003460 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 204722003461 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 204722003462 N-terminal plug; other site 204722003463 ligand-binding site [chemical binding]; other site 204722003464 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 204722003465 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722003466 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204722003467 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_5; cd06338 204722003468 putative ligand binding site [chemical binding]; other site 204722003469 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722003470 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 204722003471 TM-ABC transporter signature motif; other site 204722003472 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204722003473 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204722003474 Walker A/P-loop; other site 204722003475 ATP binding site [chemical binding]; other site 204722003476 Q-loop/lid; other site 204722003477 ABC transporter signature motif; other site 204722003478 Walker B; other site 204722003479 D-loop; other site 204722003480 H-loop/switch region; other site 204722003481 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204722003482 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204722003483 Walker A/P-loop; other site 204722003484 ATP binding site [chemical binding]; other site 204722003485 Q-loop/lid; other site 204722003486 ABC transporter signature motif; other site 204722003487 Walker B; other site 204722003488 D-loop; other site 204722003489 H-loop/switch region; other site 204722003490 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 204722003491 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204722003492 Soluble P-type ATPase [General function prediction only]; Region: COG4087 204722003493 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 204722003494 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 204722003495 FeS/SAM binding site; other site 204722003496 HemN C-terminal domain; Region: HemN_C; pfam06969 204722003497 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 204722003498 MerR family regulatory protein; Region: MerR; pfam00376 204722003499 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 204722003500 P-loop; other site 204722003501 Magnesium ion binding site [ion binding]; other site 204722003502 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 204722003503 P-loop; other site 204722003504 Magnesium ion binding site [ion binding]; other site 204722003505 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 204722003506 ParB-like nuclease domain; Region: ParB; smart00470 204722003507 DnaA N-terminal domain; Region: DnaA_N; pfam11638 204722003508 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 204722003509 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 204722003510 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 204722003511 DnaA box-binding interface [nucleotide binding]; other site 204722003512 DNA polymerase III subunit beta; Validated; Region: PRK05643 204722003513 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 204722003514 putative DNA binding surface [nucleotide binding]; other site 204722003515 dimer interface [polypeptide binding]; other site 204722003516 beta-clamp/clamp loader binding surface; other site 204722003517 beta-clamp/translesion DNA polymerase binding surface; other site 204722003518 recombination protein F; Reviewed; Region: recF; PRK00064 204722003519 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 204722003520 Walker A/P-loop; other site 204722003521 ATP binding site [chemical binding]; other site 204722003522 Q-loop/lid; other site 204722003523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722003524 ABC transporter signature motif; other site 204722003525 Walker B; other site 204722003526 D-loop; other site 204722003527 H-loop/switch region; other site 204722003528 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 204722003529 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 204722003530 ATP binding site [chemical binding]; other site 204722003531 substrate interface [chemical binding]; other site 204722003532 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 204722003533 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 204722003534 putative ligand binding site [chemical binding]; other site 204722003535 NAD binding site [chemical binding]; other site 204722003536 dimerization interface [polypeptide binding]; other site 204722003537 catalytic site [active] 204722003538 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 204722003539 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722003540 Walker A/P-loop; other site 204722003541 ATP binding site [chemical binding]; other site 204722003542 Q-loop/lid; other site 204722003543 ABC transporter signature motif; other site 204722003544 Walker B; other site 204722003545 D-loop; other site 204722003546 H-loop/switch region; other site 204722003547 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 204722003548 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722003549 Walker A/P-loop; other site 204722003550 ATP binding site [chemical binding]; other site 204722003551 Q-loop/lid; other site 204722003552 ABC transporter signature motif; other site 204722003553 Walker B; other site 204722003554 D-loop; other site 204722003555 H-loop/switch region; other site 204722003556 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 204722003557 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 204722003558 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003559 dimer interface [polypeptide binding]; other site 204722003560 conserved gate region; other site 204722003561 putative PBP binding loops; other site 204722003562 ABC-ATPase subunit interface; other site 204722003563 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 204722003564 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003565 dimer interface [polypeptide binding]; other site 204722003566 conserved gate region; other site 204722003567 putative PBP binding loops; other site 204722003568 ABC-ATPase subunit interface; other site 204722003569 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 204722003570 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 204722003571 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 204722003572 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 204722003573 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204722003574 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 204722003575 dimerization interface [polypeptide binding]; other site 204722003576 ligand binding site [chemical binding]; other site 204722003577 enoyl-CoA hydratase; Provisional; Region: PRK07468 204722003578 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 204722003579 substrate binding site [chemical binding]; other site 204722003580 oxyanion hole (OAH) forming residues; other site 204722003581 trimer interface [polypeptide binding]; other site 204722003582 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 204722003583 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 204722003584 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204722003585 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 204722003586 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 204722003587 carboxyltransferase (CT) interaction site; other site 204722003588 biotinylation site [posttranslational modification]; other site 204722003589 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 204722003590 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 204722003591 isovaleryl-CoA dehydrogenase; Region: PLN02519 204722003592 substrate binding site [chemical binding]; other site 204722003593 FAD binding site [chemical binding]; other site 204722003594 catalytic base [active] 204722003595 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 204722003596 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 204722003597 acyl-activating enzyme (AAE) consensus motif; other site 204722003598 putative AMP binding site [chemical binding]; other site 204722003599 putative active site [active] 204722003600 putative CoA binding site [chemical binding]; other site 204722003601 CHRD domain; Region: CHRD; pfam07452 204722003602 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 204722003603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 204722003604 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 204722003605 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 204722003606 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 204722003607 hinge; other site 204722003608 active site 204722003609 cytidylate kinase; Provisional; Region: cmk; PRK00023 204722003610 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 204722003611 CMP-binding site; other site 204722003612 The sites determining sugar specificity; other site 204722003613 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 204722003614 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 204722003615 RNA binding site [nucleotide binding]; other site 204722003616 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 204722003617 RNA binding site [nucleotide binding]; other site 204722003618 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 204722003619 RNA binding site [nucleotide binding]; other site 204722003620 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 204722003621 RNA binding site [nucleotide binding]; other site 204722003622 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 204722003623 RNA binding site [nucleotide binding]; other site 204722003624 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 204722003625 RNA binding site [nucleotide binding]; other site 204722003626 Predicted membrane protein [Function unknown]; Region: COG2855 204722003627 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 204722003628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722003629 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 204722003630 putative dimerization interface [polypeptide binding]; other site 204722003631 lytic murein transglycosylase; Region: MltB_2; TIGR02283 204722003632 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 204722003633 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204722003634 recombination protein RecR; Reviewed; Region: recR; PRK00076 204722003635 RecR protein; Region: RecR; pfam02132 204722003636 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 204722003637 putative active site [active] 204722003638 putative metal-binding site [ion binding]; other site 204722003639 tetramer interface [polypeptide binding]; other site 204722003640 hypothetical protein; Validated; Region: PRK00153 204722003641 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 204722003642 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 204722003643 Walker A motif; other site 204722003644 ATP binding site [chemical binding]; other site 204722003645 Walker B motif; other site 204722003646 arginine finger; other site 204722003647 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 204722003648 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 204722003649 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 204722003650 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 204722003651 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 204722003652 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 204722003653 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 204722003654 putative NADH binding site [chemical binding]; other site 204722003655 putative active site [active] 204722003656 nudix motif; other site 204722003657 putative metal binding site [ion binding]; other site 204722003658 prephenate dehydratase; Provisional; Region: PRK11899 204722003659 Prephenate dehydratase; Region: PDT; pfam00800 204722003660 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 204722003661 putative L-Phe binding site [chemical binding]; other site 204722003662 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 204722003663 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 204722003664 Ligand binding site; other site 204722003665 oligomer interface; other site 204722003666 Cytochrome c2 [Energy production and conversion]; Region: COG3474 204722003667 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 204722003668 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 204722003669 putative MPT binding site; other site 204722003670 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 204722003671 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 204722003672 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 204722003673 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 204722003674 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 204722003675 D-pathway; other site 204722003676 Putative ubiquinol binding site [chemical binding]; other site 204722003677 Low-spin heme (heme b) binding site [chemical binding]; other site 204722003678 Putative water exit pathway; other site 204722003679 Binuclear center (heme o3/CuB) [ion binding]; other site 204722003680 K-pathway; other site 204722003681 Putative proton exit pathway; other site 204722003682 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 204722003683 Subunit I/III interface [polypeptide binding]; other site 204722003684 Subunit III/IV interface [polypeptide binding]; other site 204722003685 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 204722003686 Bacterial SH3 domain; Region: SH3_3; pfam08239 204722003687 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 204722003688 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204722003689 Surface antigen; Region: Bac_surface_Ag; pfam01103 204722003690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 204722003691 Family of unknown function (DUF490); Region: DUF490; pfam04357 204722003692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 204722003693 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 204722003694 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 204722003695 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 204722003696 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 204722003697 dimer interface [polypeptide binding]; other site 204722003698 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722003699 active site 204722003700 metal binding site [ion binding]; metal-binding site 204722003701 glutathione binding site [chemical binding]; other site 204722003702 Domain of unknown function DUF59; Region: DUF59; pfam01883 204722003703 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 204722003704 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 204722003705 Walker A motif; other site 204722003706 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 204722003707 phosphoglucomutase; Region: PLN02307 204722003708 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 204722003709 substrate binding site [chemical binding]; other site 204722003710 dimer interface [polypeptide binding]; other site 204722003711 active site 204722003712 metal binding site [ion binding]; metal-binding site 204722003713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204722003714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722003715 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 204722003716 putative effector binding pocket; other site 204722003717 putative dimerization interface [polypeptide binding]; other site 204722003718 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 204722003719 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 204722003720 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 204722003721 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 204722003722 active site 204722003723 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 204722003724 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 204722003725 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 204722003726 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 204722003727 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204722003728 catalytic residue [active] 204722003729 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 204722003730 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 204722003731 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 204722003732 putative active site [active] 204722003733 putative PHP Thumb interface [polypeptide binding]; other site 204722003734 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 204722003735 generic binding surface II; other site 204722003736 generic binding surface I; other site 204722003737 DNA Polymerase Y-family; Region: PolY_like; cd03468 204722003738 active site 204722003739 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 204722003740 DNA binding site [nucleotide binding] 204722003741 Uncharacterized conserved protein [Function unknown]; Region: COG4544 204722003742 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 204722003743 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 204722003744 trimer interface [polypeptide binding]; other site 204722003745 Haemagglutinin; Region: HIM; pfam05662 204722003746 YadA-like C-terminal region; Region: YadA; pfam03895 204722003747 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 204722003748 argininosuccinate synthase; Provisional; Region: PRK13820 204722003749 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 204722003750 ANP binding site [chemical binding]; other site 204722003751 Substrate Binding Site II [chemical binding]; other site 204722003752 Substrate Binding Site I [chemical binding]; other site 204722003753 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 204722003754 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 204722003755 FeS/SAM binding site; other site 204722003756 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 204722003757 Uncharacterized conserved protein [Function unknown]; Region: COG3339 204722003758 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 204722003759 aromatic arch; other site 204722003760 DCoH dimer interaction site [polypeptide binding]; other site 204722003761 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 204722003762 DCoH tetramer interaction site [polypeptide binding]; other site 204722003763 substrate binding site [chemical binding]; other site 204722003764 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 204722003765 Low molecular weight phosphatase family; Region: LMWPc; cd00115 204722003766 active site 204722003767 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 204722003768 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 204722003769 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 204722003770 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 204722003771 active site 204722003772 catalytic triad [active] 204722003773 oxyanion hole [active] 204722003774 switch loop; other site 204722003775 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 204722003776 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 204722003777 Walker A/P-loop; other site 204722003778 ATP binding site [chemical binding]; other site 204722003779 Q-loop/lid; other site 204722003780 ABC transporter signature motif; other site 204722003781 Walker B; other site 204722003782 D-loop; other site 204722003783 H-loop/switch region; other site 204722003784 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 204722003785 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 204722003786 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 204722003787 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 204722003788 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722003789 Coenzyme A binding pocket [chemical binding]; other site 204722003790 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 204722003791 Uncharacterized secreted protein [Function unknown]; Region: COG5429 204722003792 aconitate hydratase; Validated; Region: PRK09277 204722003793 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 204722003794 substrate binding site [chemical binding]; other site 204722003795 ligand binding site [chemical binding]; other site 204722003796 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 204722003797 substrate binding site [chemical binding]; other site 204722003798 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 204722003799 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 204722003800 Walker A/P-loop; other site 204722003801 ATP binding site [chemical binding]; other site 204722003802 Q-loop/lid; other site 204722003803 ABC transporter signature motif; other site 204722003804 Walker B; other site 204722003805 D-loop; other site 204722003806 H-loop/switch region; other site 204722003807 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 204722003808 heme exporter protein CcmC; Region: ccmC; TIGR01191 204722003809 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 204722003810 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 204722003811 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 204722003812 catalytic residues [active] 204722003813 central insert; other site 204722003814 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 204722003815 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; cl02542 204722003816 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 204722003817 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 204722003818 active site 204722003819 phosphorylation site [posttranslational modification] 204722003820 intermolecular recognition site; other site 204722003821 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204722003822 AsnC family; Region: AsnC_trans_reg; pfam01037 204722003823 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 204722003824 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 204722003825 Uncharacterized conserved protein [Function unknown]; Region: COG1434 204722003826 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 204722003827 putative active site [active] 204722003828 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 204722003829 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 204722003830 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 204722003831 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003832 dimer interface [polypeptide binding]; other site 204722003833 conserved gate region; other site 204722003834 putative PBP binding loops; other site 204722003835 ABC-ATPase subunit interface; other site 204722003836 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722003837 dimer interface [polypeptide binding]; other site 204722003838 conserved gate region; other site 204722003839 putative PBP binding loops; other site 204722003840 ABC-ATPase subunit interface; other site 204722003841 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 204722003842 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 204722003843 Walker A/P-loop; other site 204722003844 ATP binding site [chemical binding]; other site 204722003845 Q-loop/lid; other site 204722003846 ABC transporter signature motif; other site 204722003847 Walker B; other site 204722003848 D-loop; other site 204722003849 H-loop/switch region; other site 204722003850 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 204722003851 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 204722003852 Putative glucoamylase; Region: Glycoamylase; pfam10091 204722003853 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 204722003854 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 204722003855 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 204722003856 Protein of unknown function, DUF608; Region: DUF608; pfam04685 204722003857 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 204722003858 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 204722003859 active site 204722003860 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 204722003861 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 204722003862 S-adenosylmethionine binding site [chemical binding]; other site 204722003863 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 204722003864 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 204722003865 putative substrate binding site [chemical binding]; other site 204722003866 putative ATP binding site [chemical binding]; other site 204722003867 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 204722003868 classical (c) SDRs; Region: SDR_c; cd05233 204722003869 NAD(P) binding site [chemical binding]; other site 204722003870 active site 204722003871 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 204722003872 Transglycosylase; Region: Transgly; pfam00912 204722003873 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 204722003874 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204722003875 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204722003876 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 204722003877 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 204722003878 catalytic site [active] 204722003879 putative active site [active] 204722003880 putative substrate binding site [chemical binding]; other site 204722003881 hypothetical protein; Validated; Region: PRK09104 204722003882 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 204722003883 metal binding site [ion binding]; metal-binding site 204722003884 putative dimer interface [polypeptide binding]; other site 204722003885 DNA polymerase I; Region: pola; TIGR00593 204722003886 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 204722003887 active site 204722003888 metal binding site 1 [ion binding]; metal-binding site 204722003889 putative 5' ssDNA interaction site; other site 204722003890 metal binding site 3; metal-binding site 204722003891 metal binding site 2 [ion binding]; metal-binding site 204722003892 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 204722003893 putative DNA binding site [nucleotide binding]; other site 204722003894 putative metal binding site [ion binding]; other site 204722003895 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 204722003896 active site 204722003897 catalytic site [active] 204722003898 substrate binding site [chemical binding]; other site 204722003899 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 204722003900 active site 204722003901 DNA binding site [nucleotide binding] 204722003902 catalytic site [active] 204722003903 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 204722003904 DEAD-like helicases superfamily; Region: DEXDc; smart00487 204722003905 ATP binding site [chemical binding]; other site 204722003906 Mg++ binding site [ion binding]; other site 204722003907 motif III; other site 204722003908 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 204722003909 nucleotide binding region [chemical binding]; other site 204722003910 ATP-binding site [chemical binding]; other site 204722003911 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 204722003912 RNA binding site [nucleotide binding]; other site 204722003913 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 204722003914 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 204722003915 Mg2+ binding site [ion binding]; other site 204722003916 G-X-G motif; other site 204722003917 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 204722003918 anchoring element; other site 204722003919 dimer interface [polypeptide binding]; other site 204722003920 ATP binding site [chemical binding]; other site 204722003921 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 204722003922 active site 204722003923 metal binding site [ion binding]; metal-binding site 204722003924 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 204722003925 S-formylglutathione hydrolase; Region: PLN02442 204722003926 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 204722003927 Predicted membrane protein [Function unknown]; Region: COG4291 204722003928 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 204722003929 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722003930 Coenzyme A binding pocket [chemical binding]; other site 204722003931 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 204722003932 putative metal binding site [ion binding]; other site 204722003933 putative homodimer interface [polypeptide binding]; other site 204722003934 putative homotetramer interface [polypeptide binding]; other site 204722003935 putative homodimer-homodimer interface [polypeptide binding]; other site 204722003936 putative allosteric switch controlling residues; other site 204722003937 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722003938 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 204722003939 ATP binding site [chemical binding]; other site 204722003940 Mg2+ binding site [ion binding]; other site 204722003941 G-X-G motif; other site 204722003942 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 204722003943 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 204722003944 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 204722003945 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 204722003946 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 204722003947 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 204722003948 active site 204722003949 phosphorylation site [posttranslational modification] 204722003950 intermolecular recognition site; other site 204722003951 dimerization interface [polypeptide binding]; other site 204722003952 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 204722003953 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 204722003954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 204722003955 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 204722003956 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 204722003957 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 204722003958 Universal stress protein family; Region: Usp; pfam00582 204722003959 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 204722003960 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 204722003961 active site 204722003962 HIGH motif; other site 204722003963 dimer interface [polypeptide binding]; other site 204722003964 KMSKS motif; other site 204722003965 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 204722003966 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 204722003967 PII uridylyl-transferase; Provisional; Region: PRK05092 204722003968 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 204722003969 metal binding triad; other site 204722003970 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 204722003971 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204722003972 Zn2+ binding site [ion binding]; other site 204722003973 Mg2+ binding site [ion binding]; other site 204722003974 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 204722003975 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 204722003976 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 204722003977 MutS domain I; Region: MutS_I; pfam01624 204722003978 MutS domain II; Region: MutS_II; pfam05188 204722003979 MutS domain III; Region: MutS_III; pfam05192 204722003980 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 204722003981 Walker A/P-loop; other site 204722003982 ATP binding site [chemical binding]; other site 204722003983 Q-loop/lid; other site 204722003984 ABC transporter signature motif; other site 204722003985 Walker B; other site 204722003986 D-loop; other site 204722003987 H-loop/switch region; other site 204722003988 Putative hemolysin [General function prediction only]; Region: COG3176 204722003989 lipoprotein signal peptidase; Provisional; Region: PRK14795 204722003990 lipoprotein signal peptidase; Provisional; Region: PRK14787 204722003991 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 204722003992 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 204722003993 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 204722003994 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 204722003995 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 204722003996 S-adenosylmethionine binding site [chemical binding]; other site 204722003997 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 204722003998 IHF dimer interface [polypeptide binding]; other site 204722003999 IHF - DNA interface [nucleotide binding]; other site 204722004000 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 204722004001 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 204722004002 tandem repeat interface [polypeptide binding]; other site 204722004003 oligomer interface [polypeptide binding]; other site 204722004004 active site residues [active] 204722004005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 204722004006 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 204722004007 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 204722004008 OstA-like protein; Region: OstA; pfam03968 204722004009 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 204722004010 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 204722004011 Walker A/P-loop; other site 204722004012 ATP binding site [chemical binding]; other site 204722004013 Q-loop/lid; other site 204722004014 ABC transporter signature motif; other site 204722004015 Walker B; other site 204722004016 D-loop; other site 204722004017 H-loop/switch region; other site 204722004018 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 204722004019 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 204722004020 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 204722004021 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 204722004022 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 204722004023 30S subunit binding site; other site 204722004024 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 204722004025 active site 204722004026 phosphorylation site [posttranslational modification] 204722004027 Uncharacterized small protein [Function unknown]; Region: COG5568 204722004028 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 204722004029 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 204722004030 putative dimer interface [polypeptide binding]; other site 204722004031 Integral membrane protein [Function unknown]; Region: COG5488 204722004032 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 204722004033 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 204722004034 minor groove reading motif; other site 204722004035 helix-hairpin-helix signature motif; other site 204722004036 substrate binding pocket [chemical binding]; other site 204722004037 active site 204722004038 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 204722004039 CysZ-like protein; Reviewed; Region: PRK12768 204722004040 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 204722004041 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 204722004042 substrate binding site [chemical binding]; other site 204722004043 ATP binding site [chemical binding]; other site 204722004044 Predicted membrane protein [Function unknown]; Region: COG2860 204722004045 UPF0126 domain; Region: UPF0126; pfam03458 204722004046 UPF0126 domain; Region: UPF0126; pfam03458 204722004047 heat shock protein GrpE; Provisional; Region: PRK14141 204722004048 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 204722004049 dimer interface [polypeptide binding]; other site 204722004050 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 204722004051 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 204722004052 ribonuclease PH; Reviewed; Region: rph; PRK00173 204722004053 Ribonuclease PH; Region: RNase_PH_bact; cd11362 204722004054 hexamer interface [polypeptide binding]; other site 204722004055 active site 204722004056 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722004057 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_13; cd08354 204722004058 putative metal binding site [ion binding]; other site 204722004059 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 204722004060 active site 204722004061 dimerization interface [polypeptide binding]; other site 204722004062 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 204722004063 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 204722004064 FeS/SAM binding site; other site 204722004065 HemN C-terminal domain; Region: HemN_C; pfam06969 204722004066 Predicted methyltransferases [General function prediction only]; Region: COG0313 204722004067 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 204722004068 putative SAM binding site [chemical binding]; other site 204722004069 putative homodimer interface [polypeptide binding]; other site 204722004070 hypothetical protein; Reviewed; Region: PRK12497 204722004071 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 204722004072 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 204722004073 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 204722004074 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 204722004075 active site 204722004076 SAM binding site [chemical binding]; other site 204722004077 homodimer interface [polypeptide binding]; other site 204722004078 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 204722004079 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 204722004080 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 204722004081 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 204722004082 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 204722004083 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 204722004084 Active Sites [active] 204722004085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 204722004086 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 204722004087 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 204722004088 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 204722004089 active site 204722004090 DNA binding site [nucleotide binding] 204722004091 BA14K-like protein; Region: BA14K; pfam07886 204722004092 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 204722004093 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 204722004094 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 204722004095 substrate binding pocket [chemical binding]; other site 204722004096 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 204722004097 B12 binding site [chemical binding]; other site 204722004098 cobalt ligand [ion binding]; other site 204722004099 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 204722004100 Dehydratase family; Region: ILVD_EDD; cl00340 204722004101 Autoinducer binding domain; Region: Autoind_bind; pfam03472 204722004102 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 204722004103 DNA binding residues [nucleotide binding] 204722004104 aminotransferase; Provisional; Region: PRK06105 204722004105 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 204722004106 inhibitor-cofactor binding pocket; inhibition site 204722004107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722004108 catalytic residue [active] 204722004109 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 204722004110 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 204722004111 Active Sites [active] 204722004112 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 204722004113 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 204722004114 CysD dimerization site [polypeptide binding]; other site 204722004115 G1 box; other site 204722004116 putative GEF interaction site [polypeptide binding]; other site 204722004117 GTP/Mg2+ binding site [chemical binding]; other site 204722004118 Switch I region; other site 204722004119 G2 box; other site 204722004120 G3 box; other site 204722004121 Switch II region; other site 204722004122 G4 box; other site 204722004123 G5 box; other site 204722004124 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 204722004125 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 204722004126 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 204722004127 ligand-binding site [chemical binding]; other site 204722004128 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 204722004129 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 204722004130 active site 204722004131 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204722004132 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 204722004133 ligand binding site [chemical binding]; other site 204722004134 flexible hinge region; other site 204722004135 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 204722004136 putative switch regulator; other site 204722004137 non-specific DNA interactions [nucleotide binding]; other site 204722004138 DNA binding site [nucleotide binding] 204722004139 sequence specific DNA binding site [nucleotide binding]; other site 204722004140 putative cAMP binding site [chemical binding]; other site 204722004141 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 204722004142 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 204722004143 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 204722004144 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 204722004145 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 204722004146 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722004147 NAD(P) binding site [chemical binding]; other site 204722004148 catalytic residues [active] 204722004149 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 204722004150 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 204722004151 NAD binding site [chemical binding]; other site 204722004152 substrate binding site [chemical binding]; other site 204722004153 catalytic Zn binding site [ion binding]; other site 204722004154 tetramer interface [polypeptide binding]; other site 204722004155 structural Zn binding site [ion binding]; other site 204722004156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 204722004157 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 204722004158 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722004159 NAD(P) binding site [chemical binding]; other site 204722004160 catalytic residues [active] 204722004161 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 204722004162 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722004163 dimer interface [polypeptide binding]; other site 204722004164 conserved gate region; other site 204722004165 putative PBP binding loops; other site 204722004166 ABC-ATPase subunit interface; other site 204722004167 Putative transcription activator [Transcription]; Region: TenA; COG0819 204722004168 NMT1/THI5 like; Region: NMT1; pfam09084 204722004169 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 204722004170 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 204722004171 active site 204722004172 thiamine phosphate binding site [chemical binding]; other site 204722004173 pyrophosphate binding site [ion binding]; other site 204722004174 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 204722004175 ThiS interaction site; other site 204722004176 putative active site [active] 204722004177 tetramer interface [polypeptide binding]; other site 204722004178 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 204722004179 thiS-thiF/thiG interaction site; other site 204722004180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204722004181 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 204722004182 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 204722004183 dimer interface [polypeptide binding]; other site 204722004184 substrate binding site [chemical binding]; other site 204722004185 ATP binding site [chemical binding]; other site 204722004186 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 204722004187 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 204722004188 putative active site [active] 204722004189 heme pocket [chemical binding]; other site 204722004190 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 204722004191 putative active site [active] 204722004192 heme pocket [chemical binding]; other site 204722004193 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204722004194 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204722004195 metal binding site [ion binding]; metal-binding site 204722004196 active site 204722004197 I-site; other site 204722004198 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 204722004199 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 204722004200 metal-binding site [ion binding] 204722004201 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 204722004202 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 204722004203 metal-binding site [ion binding] 204722004204 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204722004205 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 204722004206 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 204722004207 DNA binding residues [nucleotide binding] 204722004208 dimer interface [polypeptide binding]; other site 204722004209 copper binding site [ion binding]; other site 204722004210 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722004211 dimer interface [polypeptide binding]; other site 204722004212 conserved gate region; other site 204722004213 putative PBP binding loops; other site 204722004214 ABC-ATPase subunit interface; other site 204722004215 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 204722004216 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 204722004217 Walker A/P-loop; other site 204722004218 ATP binding site [chemical binding]; other site 204722004219 Q-loop/lid; other site 204722004220 ABC transporter signature motif; other site 204722004221 Walker B; other site 204722004222 D-loop; other site 204722004223 H-loop/switch region; other site 204722004224 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 204722004225 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722004226 dimer interface [polypeptide binding]; other site 204722004227 conserved gate region; other site 204722004228 ABC-ATPase subunit interface; other site 204722004229 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 204722004230 Uncharacterized conserved protein [Function unknown]; Region: COG5514 204722004231 heme-binding site [chemical binding]; other site 204722004232 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 204722004233 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 204722004234 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 204722004235 NAD(P) binding site [chemical binding]; other site 204722004236 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 204722004237 hydroxyglutarate oxidase; Provisional; Region: PRK11728 204722004238 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 204722004239 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 204722004240 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 204722004241 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 204722004242 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 204722004243 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 204722004244 Amidohydrolase; Region: Amidohydro_2; pfam04909 204722004245 active site 204722004246 Transcriptional regulator [Transcription]; Region: IclR; COG1414 204722004247 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 204722004248 putative DNA binding site [nucleotide binding]; other site 204722004249 putative Zn2+ binding site [ion binding]; other site 204722004250 Bacterial transcriptional regulator; Region: IclR; pfam01614 204722004251 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 204722004252 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 204722004253 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722004254 dimer interface [polypeptide binding]; other site 204722004255 conserved gate region; other site 204722004256 putative PBP binding loops; other site 204722004257 ABC-ATPase subunit interface; other site 204722004258 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 204722004259 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722004260 dimer interface [polypeptide binding]; other site 204722004261 conserved gate region; other site 204722004262 putative PBP binding loops; other site 204722004263 ABC-ATPase subunit interface; other site 204722004264 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 204722004265 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 204722004266 Walker A/P-loop; other site 204722004267 ATP binding site [chemical binding]; other site 204722004268 Q-loop/lid; other site 204722004269 ABC transporter signature motif; other site 204722004270 Walker B; other site 204722004271 D-loop; other site 204722004272 H-loop/switch region; other site 204722004273 TOBE domain; Region: TOBE_2; pfam08402 204722004274 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 204722004275 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 204722004276 active site pocket [active] 204722004277 Uncharacterized conserved protein [Function unknown]; Region: COG3254 204722004278 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722004279 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722004280 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 204722004281 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 204722004282 NAD binding site [chemical binding]; other site 204722004283 homotetramer interface [polypeptide binding]; other site 204722004284 homodimer interface [polypeptide binding]; other site 204722004285 active site 204722004286 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 204722004287 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 204722004288 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 204722004289 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 204722004290 putative active site pocket [active] 204722004291 metal binding site [ion binding]; metal-binding site 204722004292 zinc-binding protein; Provisional; Region: PRK01343 204722004293 Maf-like protein; Region: Maf; pfam02545 204722004294 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 204722004295 active site 204722004296 dimer interface [polypeptide binding]; other site 204722004297 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 204722004298 rRNA binding site [nucleotide binding]; other site 204722004299 predicted 30S ribosome binding site; other site 204722004300 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 204722004301 Low molecular weight phosphatase family; Region: LMWPc; cd00115 204722004302 active site 204722004303 hypothetical protein; Provisional; Region: PRK02853 204722004304 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 204722004305 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 204722004306 NAD binding site [chemical binding]; other site 204722004307 dimerization interface [polypeptide binding]; other site 204722004308 product binding site; other site 204722004309 substrate binding site [chemical binding]; other site 204722004310 zinc binding site [ion binding]; other site 204722004311 catalytic residues [active] 204722004312 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 204722004313 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 204722004314 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 204722004315 hinge; other site 204722004316 active site 204722004317 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 204722004318 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 204722004319 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 204722004320 active site 204722004321 DNA binding site [nucleotide binding] 204722004322 Int/Topo IB signature motif; other site 204722004323 Prophage antirepressor [Transcription]; Region: COG3617 204722004324 BRO family, N-terminal domain; Region: Bro-N; smart01040 204722004325 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 204722004326 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 204722004327 catalytic residues [active] 204722004328 catalytic nucleophile [active] 204722004329 Presynaptic Site I dimer interface [polypeptide binding]; other site 204722004330 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 204722004331 Synaptic Flat tetramer interface [polypeptide binding]; other site 204722004332 Synaptic Site I dimer interface [polypeptide binding]; other site 204722004333 DNA binding site [nucleotide binding] 204722004334 BRO family, N-terminal domain; Region: Bro-N; cl10591 204722004335 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 204722004336 non-specific DNA binding site [nucleotide binding]; other site 204722004337 salt bridge; other site 204722004338 sequence-specific DNA binding site [nucleotide binding]; other site 204722004339 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 204722004340 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 204722004341 alpha-gamma subunit interface [polypeptide binding]; other site 204722004342 beta-gamma subunit interface [polypeptide binding]; other site 204722004343 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 204722004344 gamma-beta subunit interface [polypeptide binding]; other site 204722004345 alpha-beta subunit interface [polypeptide binding]; other site 204722004346 urease subunit alpha; Reviewed; Region: ureC; PRK13207 204722004347 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 204722004348 subunit interactions [polypeptide binding]; other site 204722004349 active site 204722004350 flap region; other site 204722004351 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 204722004352 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 204722004353 dimer interface [polypeptide binding]; other site 204722004354 catalytic residues [active] 204722004355 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 204722004356 UreF; Region: UreF; pfam01730 204722004357 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 204722004358 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722004359 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 204722004360 ATP binding site [chemical binding]; other site 204722004361 Mg2+ binding site [ion binding]; other site 204722004362 G-X-G motif; other site 204722004363 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204722004364 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722004365 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722004366 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 204722004367 phenylhydantoinase; Validated; Region: PRK08323 204722004368 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 204722004369 tetramer interface [polypeptide binding]; other site 204722004370 active site 204722004371 allantoate amidohydrolase; Reviewed; Region: PRK12893 204722004372 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 204722004373 active site 204722004374 metal binding site [ion binding]; metal-binding site 204722004375 dimer interface [polypeptide binding]; other site 204722004376 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 204722004377 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204722004378 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 204722004379 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_31; cd04690 204722004380 nudix motif; other site 204722004381 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 204722004382 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 204722004383 homodimer interface [polypeptide binding]; other site 204722004384 active site 204722004385 FMN binding site [chemical binding]; other site 204722004386 substrate binding site [chemical binding]; other site 204722004387 4Fe-4S binding domain; Region: Fer4; cl02805 204722004388 4Fe-4S binding domain; Region: Fer4; pfam00037 204722004389 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 204722004390 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204722004391 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204722004392 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 204722004393 putative hydrophobic ligand binding site [chemical binding]; other site 204722004394 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 204722004395 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 204722004396 active site 204722004397 dimer interface [polypeptide binding]; other site 204722004398 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 204722004399 dimer interface [polypeptide binding]; other site 204722004400 active site 204722004401 Predicted deacylase [General function prediction only]; Region: COG3608 204722004402 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 204722004403 active site 204722004404 Zn binding site [ion binding]; other site 204722004405 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 204722004406 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 204722004407 motif II; other site 204722004408 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 204722004409 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 204722004410 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 204722004411 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 204722004412 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 204722004413 acyl-activating enzyme (AAE) consensus motif; other site 204722004414 putative AMP binding site [chemical binding]; other site 204722004415 putative active site [active] 204722004416 putative CoA binding site [chemical binding]; other site 204722004417 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 204722004418 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204722004419 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 204722004420 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204722004421 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722004422 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722004423 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 204722004424 Protein export membrane protein; Region: SecD_SecF; cl14618 204722004425 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 204722004426 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 204722004427 substrate binding pocket [chemical binding]; other site 204722004428 membrane-bound complex binding site; other site 204722004429 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 204722004430 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 204722004431 DXD motif; other site 204722004432 Uncharacterized conserved protein [Function unknown]; Region: COG2326 204722004433 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 204722004434 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 204722004435 dimer interface [polypeptide binding]; other site 204722004436 phosphorylation site [posttranslational modification] 204722004437 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 204722004438 ATP binding site [chemical binding]; other site 204722004439 Mg2+ binding site [ion binding]; other site 204722004440 G-X-G motif; other site 204722004441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 204722004442 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 204722004443 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 204722004444 inhibitor-cofactor binding pocket; inhibition site 204722004445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722004446 catalytic residue [active] 204722004447 ornithine carbamoyltransferase; Provisional; Region: PRK00779 204722004448 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 204722004449 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 204722004450 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 204722004451 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 204722004452 dimerization interface [polypeptide binding]; other site 204722004453 domain crossover interface; other site 204722004454 redox-dependent activation switch; other site 204722004455 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 204722004456 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 204722004457 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 204722004458 homodimer interface [polypeptide binding]; other site 204722004459 substrate-cofactor binding pocket; other site 204722004460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722004461 catalytic residue [active] 204722004462 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 204722004463 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 204722004464 trimer interface [polypeptide binding]; other site 204722004465 active site 204722004466 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 204722004467 trimer interface [polypeptide binding]; other site 204722004468 active site 204722004469 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 204722004470 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 204722004471 conserved cys residue [active] 204722004472 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 204722004473 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 204722004474 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 204722004475 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 204722004476 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 204722004477 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 204722004478 quinone interaction residues [chemical binding]; other site 204722004479 active site 204722004480 catalytic residues [active] 204722004481 FMN binding site [chemical binding]; other site 204722004482 substrate binding site [chemical binding]; other site 204722004483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 204722004484 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 204722004485 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 204722004486 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 204722004487 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 204722004488 active site 204722004489 phosphorylation site [posttranslational modification] 204722004490 intermolecular recognition site; other site 204722004491 dimerization interface [polypeptide binding]; other site 204722004492 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 204722004493 DNA binding residues [nucleotide binding] 204722004494 dimerization interface [polypeptide binding]; other site 204722004495 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 204722004496 Na binding site [ion binding]; other site 204722004497 PAS fold; Region: PAS_7; pfam12860 204722004498 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722004499 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 204722004500 dimer interface [polypeptide binding]; other site 204722004501 phosphorylation site [posttranslational modification] 204722004502 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 204722004503 ATP binding site [chemical binding]; other site 204722004504 Mg2+ binding site [ion binding]; other site 204722004505 G-X-G motif; other site 204722004506 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 204722004507 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 204722004508 active site 204722004509 phosphorylation site [posttranslational modification] 204722004510 intermolecular recognition site; other site 204722004511 dimerization interface [polypeptide binding]; other site 204722004512 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 204722004513 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 204722004514 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 204722004515 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 204722004516 substrate-cofactor binding pocket; other site 204722004517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722004518 catalytic residue [active] 204722004519 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 204722004520 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 204722004521 putative active site [active] 204722004522 putative metal binding site [ion binding]; other site 204722004523 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 204722004524 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 204722004525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204722004526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722004527 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 204722004528 putative dimerization interface [polypeptide binding]; other site 204722004529 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 204722004530 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 204722004531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 204722004532 pantoate--beta-alanine ligase; Region: panC; TIGR00018 204722004533 Pantoate-beta-alanine ligase; Region: PanC; cd00560 204722004534 active site 204722004535 ATP-binding site [chemical binding]; other site 204722004536 pantoate-binding site; other site 204722004537 HXXH motif; other site 204722004538 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 204722004539 active site 204722004540 oligomerization interface [polypeptide binding]; other site 204722004541 metal binding site [ion binding]; metal-binding site 204722004542 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 204722004543 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 204722004544 FAD binding pocket [chemical binding]; other site 204722004545 FAD binding motif [chemical binding]; other site 204722004546 phosphate binding motif [ion binding]; other site 204722004547 beta-alpha-beta structure motif; other site 204722004548 NAD binding pocket [chemical binding]; other site 204722004549 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 204722004550 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 204722004551 dimer interface [polypeptide binding]; other site 204722004552 active site 204722004553 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204722004554 catalytic residues [active] 204722004555 substrate binding site [chemical binding]; other site 204722004556 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 204722004557 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 204722004558 NAD(P) binding pocket [chemical binding]; other site 204722004559 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 204722004560 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 204722004561 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 204722004562 multidrug efflux protein; Reviewed; Region: PRK01766 204722004563 cation binding site [ion binding]; other site 204722004564 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 204722004565 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 204722004566 active site 204722004567 phosphorylation site [posttranslational modification] 204722004568 intermolecular recognition site; other site 204722004569 dimerization interface [polypeptide binding]; other site 204722004570 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 204722004571 DNA binding residues [nucleotide binding] 204722004572 dimerization interface [polypeptide binding]; other site 204722004573 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 204722004574 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 204722004575 DctM-like transporters; Region: DctM; pfam06808 204722004576 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 204722004577 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 204722004578 hypothetical protein; Provisional; Region: PRK11171 204722004579 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 204722004580 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 204722004581 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 204722004582 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 204722004583 active site 204722004584 catalytic site [active] 204722004585 tetramer interface [polypeptide binding]; other site 204722004586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 204722004587 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 204722004588 homotetramer interface [polypeptide binding]; other site 204722004589 active site 204722004590 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 204722004591 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 204722004592 catalytic loop [active] 204722004593 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 204722004594 iron binding site [ion binding]; other site 204722004595 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 204722004596 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 204722004597 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 204722004598 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 204722004599 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 204722004600 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 204722004601 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 204722004602 XdhC Rossmann domain; Region: XdhC_C; pfam13478 204722004603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204722004604 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722004605 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 204722004606 putative effector binding pocket; other site 204722004607 dimerization interface [polypeptide binding]; other site 204722004608 Predicted membrane protein [Function unknown]; Region: COG3748 204722004609 Protein of unknown function (DUF989); Region: DUF989; pfam06181 204722004610 Cytochrome c; Region: Cytochrom_C; pfam00034 204722004611 guanine deaminase; Provisional; Region: PRK09228 204722004612 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 204722004613 active site 204722004614 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 204722004615 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 204722004616 MOFRL family; Region: MOFRL; pfam05161 204722004617 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 204722004618 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 204722004619 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 204722004620 metal-binding site [ion binding] 204722004621 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204722004622 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 204722004623 motif II; other site 204722004624 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 204722004625 FixH; Region: FixH; pfam05751 204722004626 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 204722004627 4Fe-4S binding domain; Region: Fer4_5; pfam12801 204722004628 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 204722004629 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 204722004630 Cytochrome c; Region: Cytochrom_C; pfam00034 204722004631 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 204722004632 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 204722004633 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 204722004634 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 204722004635 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 204722004636 Low-spin heme binding site [chemical binding]; other site 204722004637 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 204722004638 Putative water exit pathway; other site 204722004639 Binuclear center (active site) [active] 204722004640 Putative proton exit pathway; other site 204722004641 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 204722004642 metal binding site 2 [ion binding]; metal-binding site 204722004643 putative DNA binding helix; other site 204722004644 metal binding site 1 [ion binding]; metal-binding site 204722004645 dimer interface [polypeptide binding]; other site 204722004646 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 204722004647 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 204722004648 catalytic residues [active] 204722004649 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722004650 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 204722004651 NAD(P) binding site [chemical binding]; other site 204722004652 catalytic residues [active] 204722004653 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 204722004654 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 204722004655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722004656 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722004657 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 204722004658 DNA binding site [nucleotide binding] 204722004659 active site 204722004660 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 204722004661 ArsC family; Region: ArsC; pfam03960 204722004662 putative catalytic residues [active] 204722004663 Predicted membrane protein [Function unknown]; Region: COG4129 204722004664 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 204722004665 microcin B17 transporter; Reviewed; Region: PRK11098 204722004666 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 204722004667 NodB motif; other site 204722004668 putative active site [active] 204722004669 putative catalytic site [active] 204722004670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 204722004671 GTP-binding protein Der; Reviewed; Region: PRK00093 204722004672 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 204722004673 G1 box; other site 204722004674 GTP/Mg2+ binding site [chemical binding]; other site 204722004675 Switch I region; other site 204722004676 G2 box; other site 204722004677 Switch II region; other site 204722004678 G3 box; other site 204722004679 G4 box; other site 204722004680 G5 box; other site 204722004681 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 204722004682 G1 box; other site 204722004683 GTP/Mg2+ binding site [chemical binding]; other site 204722004684 Switch I region; other site 204722004685 G2 box; other site 204722004686 G3 box; other site 204722004687 Switch II region; other site 204722004688 G4 box; other site 204722004689 G5 box; other site 204722004690 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 204722004691 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 204722004692 nucleotide binding site [chemical binding]; other site 204722004693 putative NEF/HSP70 interaction site [polypeptide binding]; other site 204722004694 SBD interface [polypeptide binding]; other site 204722004695 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 204722004696 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 204722004697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 204722004698 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 204722004699 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 204722004700 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 204722004701 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 204722004702 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 204722004703 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 204722004704 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 204722004705 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 204722004706 RNA/DNA hybrid binding site [nucleotide binding]; other site 204722004707 active site 204722004708 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 204722004709 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 204722004710 FeS/SAM binding site; other site 204722004711 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 204722004712 active site 204722004713 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 204722004714 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 204722004715 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 204722004716 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 204722004717 tandem repeat interface [polypeptide binding]; other site 204722004718 oligomer interface [polypeptide binding]; other site 204722004719 active site residues [active] 204722004720 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 204722004721 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 204722004722 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 204722004723 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 204722004724 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 204722004725 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 204722004726 substrate binding pocket [chemical binding]; other site 204722004727 chain length determination region; other site 204722004728 substrate-Mg2+ binding site; other site 204722004729 catalytic residues [active] 204722004730 aspartate-rich region 1; other site 204722004731 active site lid residues [active] 204722004732 aspartate-rich region 2; other site 204722004733 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 204722004734 binding surface 204722004735 TPR motif; other site 204722004736 TPR repeat; Region: TPR_11; pfam13414 204722004737 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 204722004738 binding surface 204722004739 TPR motif; other site 204722004740 TPR repeat; Region: TPR_11; pfam13414 204722004741 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 204722004742 binding surface 204722004743 TPR motif; other site 204722004744 TPR repeat; Region: TPR_11; pfam13414 204722004745 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 204722004746 dimer interface [polypeptide binding]; other site 204722004747 motif 1; other site 204722004748 active site 204722004749 motif 2; other site 204722004750 motif 3; other site 204722004751 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 204722004752 DALR anticodon binding domain; Region: DALR_1; pfam05746 204722004753 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 204722004754 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 204722004755 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 204722004756 FAD binding domain; Region: FAD_binding_4; pfam01565 204722004757 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 204722004758 Predicted transcriptional regulator [Transcription]; Region: COG3905 204722004759 enoyl-CoA hydratase; Provisional; Region: PRK06688 204722004760 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 204722004761 substrate binding site [chemical binding]; other site 204722004762 oxyanion hole (OAH) forming residues; other site 204722004763 trimer interface [polypeptide binding]; other site 204722004764 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 204722004765 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 204722004766 active site 204722004767 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 204722004768 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 204722004769 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 204722004770 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 204722004771 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 204722004772 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 204722004773 UbiA prenyltransferase family; Region: UbiA; pfam01040 204722004774 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 204722004775 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 204722004776 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 204722004777 chaperone protein DnaJ; Provisional; Region: PRK14299 204722004778 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 204722004779 HSP70 interaction site [polypeptide binding]; other site 204722004780 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 204722004781 dimer interface [polypeptide binding]; other site 204722004782 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 204722004783 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 204722004784 NAD binding site [chemical binding]; other site 204722004785 homotetramer interface [polypeptide binding]; other site 204722004786 homodimer interface [polypeptide binding]; other site 204722004787 substrate binding site [chemical binding]; other site 204722004788 active site 204722004789 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 204722004790 putative acyl-acceptor binding pocket; other site 204722004791 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 204722004792 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 204722004793 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 204722004794 Tetramer interface [polypeptide binding]; other site 204722004795 active site 204722004796 FMN-binding site [chemical binding]; other site 204722004797 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 204722004798 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 204722004799 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 204722004800 dimerization interface [polypeptide binding]; other site 204722004801 active site 204722004802 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 204722004803 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 204722004804 putative active site [active] 204722004805 Zn binding site [ion binding]; other site 204722004806 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 204722004807 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 204722004808 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 204722004809 Predicted membrane protein [Function unknown]; Region: COG2261 204722004810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 204722004811 Pirin-related protein [General function prediction only]; Region: COG1741 204722004812 Pirin; Region: Pirin; pfam02678 204722004813 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 204722004814 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 204722004815 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 204722004816 TPP-binding site; other site 204722004817 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 204722004818 PYR/PP interface [polypeptide binding]; other site 204722004819 dimer interface [polypeptide binding]; other site 204722004820 TPP binding site [chemical binding]; other site 204722004821 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 204722004822 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 204722004823 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 204722004824 RNA binding surface [nucleotide binding]; other site 204722004825 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 204722004826 S-adenosylmethionine binding site [chemical binding]; other site 204722004827 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 204722004828 Methyltransferase domain; Region: Methyltransf_26; pfam13659 204722004829 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 204722004830 Predicted periplasmic protein [General function prediction only]; Region: COG3895 204722004831 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 204722004832 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 204722004833 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 204722004834 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204722004835 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 204722004836 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 204722004837 Walker A/P-loop; other site 204722004838 ATP binding site [chemical binding]; other site 204722004839 Q-loop/lid; other site 204722004840 ABC transporter signature motif; other site 204722004841 Walker B; other site 204722004842 D-loop; other site 204722004843 H-loop/switch region; other site 204722004844 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 204722004845 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 204722004846 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 204722004847 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 204722004848 classical (c) SDRs; Region: SDR_c; cd05233 204722004849 NAD(P) binding site [chemical binding]; other site 204722004850 active site 204722004851 amidophosphoribosyltransferase; Provisional; Region: PRK09123 204722004852 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 204722004853 active site 204722004854 tetramer interface [polypeptide binding]; other site 204722004855 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204722004856 active site 204722004857 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 204722004858 Colicin V production protein; Region: Colicin_V; pfam02674 204722004859 DNA repair protein RadA; Provisional; Region: PRK11823 204722004860 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 204722004861 Walker A motif/ATP binding site; other site 204722004862 ATP binding site [chemical binding]; other site 204722004863 Walker B motif; other site 204722004864 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 204722004865 replicative DNA helicase; Provisional; Region: PRK09165 204722004866 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 204722004867 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 204722004868 Walker A motif; other site 204722004869 ATP binding site [chemical binding]; other site 204722004870 Walker B motif; other site 204722004871 DNA binding loops [nucleotide binding] 204722004872 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 204722004873 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 204722004874 S-adenosylmethionine binding site [chemical binding]; other site 204722004875 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 204722004876 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 204722004877 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 204722004878 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 204722004879 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 204722004880 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 204722004881 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 204722004882 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 204722004883 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 204722004884 NAD(P) binding site [chemical binding]; other site 204722004885 homotetramer interface [polypeptide binding]; other site 204722004886 homodimer interface [polypeptide binding]; other site 204722004887 active site 204722004888 acyl carrier protein; Provisional; Region: acpP; PRK00982 204722004889 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 204722004890 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 204722004891 dimer interface [polypeptide binding]; other site 204722004892 active site 204722004893 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 204722004894 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 204722004895 dimerization interface [polypeptide binding]; other site 204722004896 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 204722004897 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 204722004898 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 204722004899 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 204722004900 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 204722004901 catalytic site [active] 204722004902 G-X2-G-X-G-K; other site 204722004903 protease TldD; Provisional; Region: tldD; PRK10735 204722004904 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 204722004905 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 204722004906 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 204722004907 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 204722004908 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 204722004909 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 204722004910 Subunit I/III interface [polypeptide binding]; other site 204722004911 D-pathway; other site 204722004912 Subunit I/VIIc interface [polypeptide binding]; other site 204722004913 Subunit I/IV interface [polypeptide binding]; other site 204722004914 Subunit I/II interface [polypeptide binding]; other site 204722004915 Low-spin heme (heme a) binding site [chemical binding]; other site 204722004916 Subunit I/VIIa interface [polypeptide binding]; other site 204722004917 Subunit I/VIa interface [polypeptide binding]; other site 204722004918 Dimer interface; other site 204722004919 Putative water exit pathway; other site 204722004920 Binuclear center (heme a3/CuB) [ion binding]; other site 204722004921 K-pathway; other site 204722004922 Subunit I/Vb interface [polypeptide binding]; other site 204722004923 Putative proton exit pathway; other site 204722004924 Subunit I/VIb interface; other site 204722004925 Subunit I/VIc interface [polypeptide binding]; other site 204722004926 Electron transfer pathway; other site 204722004927 Subunit I/VIIIb interface [polypeptide binding]; other site 204722004928 Subunit I/VIIb interface [polypeptide binding]; other site 204722004929 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 204722004930 UbiA prenyltransferase family; Region: UbiA; pfam01040 204722004931 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 204722004932 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 204722004933 Subunit III/VIIa interface [polypeptide binding]; other site 204722004934 Phospholipid binding site [chemical binding]; other site 204722004935 Subunit I/III interface [polypeptide binding]; other site 204722004936 Subunit III/VIb interface [polypeptide binding]; other site 204722004937 Subunit III/VIa interface; other site 204722004938 Subunit III/Vb interface [polypeptide binding]; other site 204722004939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 204722004940 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 204722004941 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 204722004942 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 204722004943 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 204722004944 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 204722004945 putative active site [active] 204722004946 putative substrate binding site [chemical binding]; other site 204722004947 ATP binding site [chemical binding]; other site 204722004948 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 204722004949 RNA/DNA hybrid binding site [nucleotide binding]; other site 204722004950 active site 204722004951 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 204722004952 catalytic triad [active] 204722004953 dimer interface [polypeptide binding]; other site 204722004954 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 204722004955 hypothetical protein; Validated; Region: PRK00228 204722004956 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 204722004957 PAS fold; Region: PAS_3; pfam08447 204722004958 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204722004959 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204722004960 metal binding site [ion binding]; metal-binding site 204722004961 active site 204722004962 I-site; other site 204722004963 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 204722004964 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 204722004965 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 204722004966 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 204722004967 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 204722004968 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 204722004969 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 204722004970 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 204722004971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722004972 catalytic residue [active] 204722004973 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 204722004974 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 204722004975 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 204722004976 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 204722004977 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 204722004978 active site 204722004979 motif I; other site 204722004980 motif II; other site 204722004981 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 204722004982 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 204722004983 Cl- selectivity filter; other site 204722004984 Cl- binding residues [ion binding]; other site 204722004985 pore gating glutamate residue; other site 204722004986 dimer interface [polypeptide binding]; other site 204722004987 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 204722004988 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 204722004989 DNA methylase; Region: N6_N4_Mtase; pfam01555 204722004990 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 204722004991 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 204722004992 motif II; other site 204722004993 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 204722004994 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 204722004995 minor groove reading motif; other site 204722004996 helix-hairpin-helix signature motif; other site 204722004997 substrate binding pocket [chemical binding]; other site 204722004998 active site 204722004999 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 204722005000 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 204722005001 DNA binding and oxoG recognition site [nucleotide binding] 204722005002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 204722005003 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 204722005004 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 204722005005 catalytic residues [active] 204722005006 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 204722005007 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 204722005008 Walker A/P-loop; other site 204722005009 ATP binding site [chemical binding]; other site 204722005010 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 204722005011 ABC transporter signature motif; other site 204722005012 Walker B; other site 204722005013 D-loop; other site 204722005014 H-loop/switch region; other site 204722005015 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 204722005016 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722005017 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 204722005018 pyruvate phosphate dikinase; Provisional; Region: PRK09279 204722005019 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 204722005020 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 204722005021 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 204722005022 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 204722005023 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 204722005024 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 204722005025 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 204722005026 ureidoglycolate hydrolase; Provisional; Region: PRK03606 204722005027 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 204722005028 active site 204722005029 homotetramer interface [polypeptide binding]; other site 204722005030 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 204722005031 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 204722005032 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 204722005033 NAD(P) binding site [chemical binding]; other site 204722005034 homodimer interface [polypeptide binding]; other site 204722005035 substrate binding site [chemical binding]; other site 204722005036 active site 204722005037 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 204722005038 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 204722005039 Mg++ binding site [ion binding]; other site 204722005040 putative catalytic motif [active] 204722005041 putative substrate binding site [chemical binding]; other site 204722005042 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 204722005043 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 204722005044 Integrase core domain; Region: rve_3; pfam13683 204722005045 HTH-like domain; Region: HTH_21; pfam13276 204722005046 Integrase core domain; Region: rve; pfam00665 204722005047 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 204722005048 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 204722005049 active site 204722005050 substrate binding site [chemical binding]; other site 204722005051 cosubstrate binding site; other site 204722005052 catalytic site [active] 204722005053 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 204722005054 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 204722005055 Walker A/P-loop; other site 204722005056 ATP binding site [chemical binding]; other site 204722005057 Q-loop/lid; other site 204722005058 ABC transporter signature motif; other site 204722005059 Walker B; other site 204722005060 D-loop; other site 204722005061 H-loop/switch region; other site 204722005062 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 204722005063 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 204722005064 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 204722005065 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 204722005066 inhibitor-cofactor binding pocket; inhibition site 204722005067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722005068 catalytic residue [active] 204722005069 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 204722005070 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 204722005071 NADP-binding site; other site 204722005072 homotetramer interface [polypeptide binding]; other site 204722005073 substrate binding site [chemical binding]; other site 204722005074 homodimer interface [polypeptide binding]; other site 204722005075 active site 204722005076 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 204722005077 Integrase core domain; Region: rve; pfam00665 204722005078 DDE domain; Region: DDE_Tnp_IS240; pfam13610 204722005079 Integrase core domain; Region: rve_3; pfam13683 204722005080 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 204722005081 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 204722005082 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 204722005083 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204722005084 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 204722005085 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 204722005086 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 204722005087 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 204722005088 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 204722005089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 204722005090 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 204722005091 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 204722005092 active site 204722005093 substrate binding site [chemical binding]; other site 204722005094 metal binding site [ion binding]; metal-binding site 204722005095 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 204722005096 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 204722005097 Substrate binding site; other site 204722005098 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 204722005099 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 204722005100 dimerization interface [polypeptide binding]; other site 204722005101 putative active cleft [active] 204722005102 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204722005103 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_4; cd03795 204722005104 putative ADP-binding pocket [chemical binding]; other site 204722005105 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 204722005106 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 204722005107 Walker A/P-loop; other site 204722005108 ATP binding site [chemical binding]; other site 204722005109 Q-loop/lid; other site 204722005110 ABC transporter signature motif; other site 204722005111 Walker B; other site 204722005112 D-loop; other site 204722005113 H-loop/switch region; other site 204722005114 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 204722005115 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722005116 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 204722005117 TM-ABC transporter signature motif; other site 204722005118 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 204722005119 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 204722005120 putative ligand binding site [chemical binding]; other site 204722005121 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 204722005122 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 204722005123 Metal-binding active site; metal-binding site 204722005124 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 204722005125 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722005126 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722005127 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 204722005128 xylose isomerase; Provisional; Region: PRK05474 204722005129 xylose isomerase; Region: xylose_isom_A; TIGR02630 204722005130 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 204722005131 N- and C-terminal domain interface [polypeptide binding]; other site 204722005132 D-xylulose kinase; Region: XylB; TIGR01312 204722005133 active site 204722005134 MgATP binding site [chemical binding]; other site 204722005135 catalytic site [active] 204722005136 metal binding site [ion binding]; metal-binding site 204722005137 xylulose binding site [chemical binding]; other site 204722005138 homodimer interface [polypeptide binding]; other site 204722005139 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 204722005140 DNA binding site [nucleotide binding] 204722005141 domain linker motif; other site 204722005142 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 204722005143 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 204722005144 putative ligand binding site [chemical binding]; other site 204722005145 Helix-turn-helix domain; Region: HTH_18; pfam12833 204722005146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722005147 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 204722005148 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 204722005149 NAD(P) binding site [chemical binding]; other site 204722005150 catalytic residues [active] 204722005151 choline dehydrogenase; Validated; Region: PRK02106 204722005152 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 204722005153 transcriptional regulator BetI; Validated; Region: PRK00767 204722005154 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204722005155 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 204722005156 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 204722005157 transcription elongation factor regulatory protein; Validated; Region: PRK06342 204722005158 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 204722005159 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 204722005160 putative addiction module antidote; Region: doc_partner; TIGR02609 204722005161 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 204722005162 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 204722005163 Cl binding site [ion binding]; other site 204722005164 oligomer interface [polypeptide binding]; other site 204722005165 Transcriptional regulators [Transcription]; Region: FadR; COG2186 204722005166 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722005167 DNA-binding site [nucleotide binding]; DNA binding site 204722005168 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 204722005169 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 204722005170 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722005171 putative substrate translocation pore; other site 204722005172 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 204722005173 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 204722005174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 204722005175 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 204722005176 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 204722005177 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 204722005178 motif II; other site 204722005179 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 204722005180 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 204722005181 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 204722005182 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 204722005183 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 204722005184 Predicted transcriptional regulator [Transcription]; Region: COG4957 204722005185 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 204722005186 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 204722005187 DnaA box-binding interface [nucleotide binding]; other site 204722005188 amidase; Validated; Region: PRK05962 204722005189 amidase; Provisional; Region: PRK07056 204722005190 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 204722005191 Flavin Reductases; Region: FlaRed; cl00801 204722005192 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 204722005193 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 204722005194 putative active site [active] 204722005195 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722005196 heme pocket [chemical binding]; other site 204722005197 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 204722005198 dimer interface [polypeptide binding]; other site 204722005199 phosphorylation site [posttranslational modification] 204722005200 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 204722005201 ATP binding site [chemical binding]; other site 204722005202 Mg2+ binding site [ion binding]; other site 204722005203 G-X-G motif; other site 204722005204 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 204722005205 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 204722005206 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 204722005207 Uncharacterized conserved protein [Function unknown]; Region: COG5447 204722005208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 204722005209 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 204722005210 Predicted integral membrane protein [Function unknown]; Region: COG5436 204722005211 Uncharacterized conserved protein [Function unknown]; Region: COG5402 204722005212 Transglycosylase; Region: Transgly; pfam00912 204722005213 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 204722005214 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 204722005215 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 204722005216 Uncharacterized conserved protein [Function unknown]; Region: COG5323 204722005217 Terminase-like family; Region: Terminase_6; pfam03237 204722005218 Phage-related protein [Function unknown]; Region: COG4695 204722005219 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 204722005220 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 204722005221 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 204722005222 Phage capsid family; Region: Phage_capsid; pfam05065 204722005223 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 204722005224 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 204722005225 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 204722005226 oligomerization interface [polypeptide binding]; other site 204722005227 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 204722005228 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 204722005229 Predicted secreted protein [Function unknown]; Region: COG5437 204722005230 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 204722005231 Phage-related minor tail protein [Function unknown]; Region: COG5281 204722005232 TIGR02217 family protein; Region: chp_TIGR02217 204722005233 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 204722005234 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 204722005235 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 204722005236 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 204722005237 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 204722005238 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204722005239 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 204722005240 active site 204722005241 phosphorylation site [posttranslational modification] 204722005242 intermolecular recognition site; other site 204722005243 dimerization interface [polypeptide binding]; other site 204722005244 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 204722005245 DNA binding site [nucleotide binding] 204722005246 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722005247 HAMP domain; Region: HAMP; pfam00672 204722005248 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 204722005249 ATP binding site [chemical binding]; other site 204722005250 Mg2+ binding site [ion binding]; other site 204722005251 G-X-G motif; other site 204722005252 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 204722005253 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 204722005254 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 204722005255 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 204722005256 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 204722005257 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 204722005258 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 204722005259 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 204722005260 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 204722005261 protein binding site [polypeptide binding]; other site 204722005262 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 204722005263 protein binding site [polypeptide binding]; other site 204722005264 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204722005265 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 204722005266 active site 204722005267 phosphorylation site [posttranslational modification] 204722005268 intermolecular recognition site; other site 204722005269 dimerization interface [polypeptide binding]; other site 204722005270 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 204722005271 DNA binding site [nucleotide binding] 204722005272 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722005273 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 204722005274 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 204722005275 dimerization interface [polypeptide binding]; other site 204722005276 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 204722005277 dimer interface [polypeptide binding]; other site 204722005278 phosphorylation site [posttranslational modification] 204722005279 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 204722005280 ATP binding site [chemical binding]; other site 204722005281 Mg2+ binding site [ion binding]; other site 204722005282 G-X-G motif; other site 204722005283 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 204722005284 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 204722005285 metal binding triad; other site 204722005286 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 204722005287 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 204722005288 metal binding triad; other site 204722005289 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 204722005290 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 204722005291 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 204722005292 O-Antigen ligase; Region: Wzy_C; pfam04932 204722005293 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 204722005294 PAS fold; Region: PAS_3; pfam08447 204722005295 putative active site [active] 204722005296 heme pocket [chemical binding]; other site 204722005297 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 204722005298 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 204722005299 dimer interface [polypeptide binding]; other site 204722005300 phosphorylation site [posttranslational modification] 204722005301 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 204722005302 ATP binding site [chemical binding]; other site 204722005303 Mg2+ binding site [ion binding]; other site 204722005304 G-X-G motif; other site 204722005305 aminopeptidase N; Provisional; Region: pepN; PRK14015 204722005306 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 204722005307 active site 204722005308 Zn binding site [ion binding]; other site 204722005309 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 204722005310 EamA-like transporter family; Region: EamA; pfam00892 204722005311 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722005312 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204722005313 putative substrate translocation pore; other site 204722005314 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 204722005315 Fe-S cluster binding site [ion binding]; other site 204722005316 active site 204722005317 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 204722005318 hydroxyglutarate oxidase; Provisional; Region: PRK11728 204722005319 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 204722005320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 204722005321 putative catalytic site [active] 204722005322 putative metal binding site [ion binding]; other site 204722005323 putative phosphate binding site [ion binding]; other site 204722005324 AMP nucleosidase; Provisional; Region: PRK08292 204722005325 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 204722005326 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 204722005327 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 204722005328 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 204722005329 C-terminal domain interface [polypeptide binding]; other site 204722005330 GSH binding site (G-site) [chemical binding]; other site 204722005331 dimer interface [polypeptide binding]; other site 204722005332 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 204722005333 N-terminal domain interface [polypeptide binding]; other site 204722005334 putative dimer interface [polypeptide binding]; other site 204722005335 active site 204722005336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 204722005337 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 204722005338 Uncharacterized conserved protein [Function unknown]; Region: COG1284 204722005339 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 204722005340 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 204722005341 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 204722005342 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 204722005343 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 204722005344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722005345 homodimer interface [polypeptide binding]; other site 204722005346 catalytic residue [active] 204722005347 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 204722005348 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 204722005349 active site 204722005350 DNA binding site [nucleotide binding] 204722005351 Int/Topo IB signature motif; other site 204722005352 Porin subfamily; Region: Porin_2; pfam02530 204722005353 Porin subfamily; Region: Porin_2; pfam02530 204722005354 Uncharacterized conserved protein [Function unknown]; Region: COG3743 204722005355 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 204722005356 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 204722005357 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204722005358 catalytic residue [active] 204722005359 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 204722005360 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 204722005361 dimer interface [polypeptide binding]; other site 204722005362 active site 204722005363 catalytic residue [active] 204722005364 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 204722005365 SmpB-tmRNA interface; other site 204722005366 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 204722005367 Fe-S cluster binding site [ion binding]; other site 204722005368 DNA binding site [nucleotide binding] 204722005369 active site 204722005370 Uncharacterized conserved protein [Function unknown]; Region: COG1432 204722005371 LabA_like proteins; Region: LabA; cd10911 204722005372 putative metal binding site [ion binding]; other site 204722005373 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 204722005374 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 204722005375 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204722005376 Zn2+ binding site [ion binding]; other site 204722005377 Mg2+ binding site [ion binding]; other site 204722005378 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 204722005379 synthetase active site [active] 204722005380 NTP binding site [chemical binding]; other site 204722005381 metal binding site [ion binding]; metal-binding site 204722005382 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 204722005383 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 204722005384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204722005385 active site 204722005386 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204722005387 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 204722005388 ligand binding site [chemical binding]; other site 204722005389 flexible hinge region; other site 204722005390 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 204722005391 putative switch regulator; other site 204722005392 non-specific DNA interactions [nucleotide binding]; other site 204722005393 DNA binding site [nucleotide binding] 204722005394 sequence specific DNA binding site [nucleotide binding]; other site 204722005395 putative cAMP binding site [chemical binding]; other site 204722005396 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 204722005397 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 204722005398 FeS/SAM binding site; other site 204722005399 HemN C-terminal domain; Region: HemN_C; pfam06969 204722005400 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722005401 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204722005402 putative substrate translocation pore; other site 204722005403 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 204722005404 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722005405 Helix-turn-helix domain; Region: HTH_18; pfam12833 204722005406 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722005407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 204722005408 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 204722005409 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 204722005410 Catalytic site [active] 204722005411 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 204722005412 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 204722005413 ribonuclease III; Reviewed; Region: PRK12371 204722005414 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 204722005415 dimerization interface [polypeptide binding]; other site 204722005416 active site 204722005417 metal binding site [ion binding]; metal-binding site 204722005418 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 204722005419 dsRNA binding site [nucleotide binding]; other site 204722005420 GTPase Era; Reviewed; Region: era; PRK00089 204722005421 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 204722005422 G1 box; other site 204722005423 GTP/Mg2+ binding site [chemical binding]; other site 204722005424 Switch I region; other site 204722005425 G2 box; other site 204722005426 Switch II region; other site 204722005427 G3 box; other site 204722005428 G4 box; other site 204722005429 G5 box; other site 204722005430 KH domain; Region: KH_2; pfam07650 204722005431 Recombination protein O N terminal; Region: RecO_N; pfam11967 204722005432 DNA repair protein RecO; Region: reco; TIGR00613 204722005433 Recombination protein O C terminal; Region: RecO_C; pfam02565 204722005434 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 204722005435 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 204722005436 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 204722005437 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 204722005438 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 204722005439 dihydroorotase; Validated; Region: PRK09060 204722005440 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 204722005441 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 204722005442 active site 204722005443 TIGR02301 family protein; Region: TIGR02301 204722005444 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 204722005445 nudix motif; other site 204722005446 Uncharacterized conserved protein [Function unknown]; Region: COG2135 204722005447 Lysine efflux permease [General function prediction only]; Region: COG1279 204722005448 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 204722005449 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204722005450 active site 204722005451 HIGH motif; other site 204722005452 nucleotide binding site [chemical binding]; other site 204722005453 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 204722005454 KMSKS motif; other site 204722005455 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 204722005456 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 204722005457 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 204722005458 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 204722005459 active site 204722005460 catalytic residues [active] 204722005461 metal binding site [ion binding]; metal-binding site 204722005462 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 204722005463 Predicted permeases [General function prediction only]; Region: RarD; COG2962 204722005464 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 204722005465 Peptidase family M23; Region: Peptidase_M23; pfam01551 204722005466 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 204722005467 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 204722005468 S-adenosylmethionine binding site [chemical binding]; other site 204722005469 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 204722005470 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 204722005471 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 204722005472 SurA N-terminal domain; Region: SurA_N; pfam09312 204722005473 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 204722005474 OstA-like protein; Region: OstA; cl00844 204722005475 Organic solvent tolerance protein; Region: OstA_C; pfam04453 204722005476 Predicted permeases [General function prediction only]; Region: COG0795 204722005477 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 204722005478 Predicted permeases [General function prediction only]; Region: COG0795 204722005479 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 204722005480 multifunctional aminopeptidase A; Provisional; Region: PRK00913 204722005481 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 204722005482 interface (dimer of trimers) [polypeptide binding]; other site 204722005483 Substrate-binding/catalytic site; other site 204722005484 Zn-binding sites [ion binding]; other site 204722005485 DNA polymerase III subunit chi; Validated; Region: PRK05728 204722005486 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 204722005487 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204722005488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722005489 Walker A/P-loop; other site 204722005490 ATP binding site [chemical binding]; other site 204722005491 ABC transporter signature motif; other site 204722005492 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204722005493 Walker B; other site 204722005494 D-loop; other site 204722005495 ABC transporter; Region: ABC_tran_2; pfam12848 204722005496 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204722005497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 204722005498 DinB superfamily; Region: DinB_2; pfam12867 204722005499 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 204722005500 active site 204722005501 multimer interface [polypeptide binding]; other site 204722005502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 204722005503 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 204722005504 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 204722005505 MoaE homodimer interface [polypeptide binding]; other site 204722005506 MoaD interaction [polypeptide binding]; other site 204722005507 active site residues [active] 204722005508 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 204722005509 MoaE interaction surface [polypeptide binding]; other site 204722005510 MoeB interaction surface [polypeptide binding]; other site 204722005511 thiocarboxylated glycine; other site 204722005512 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 204722005513 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 204722005514 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 204722005515 GIY-YIG motif/motif A; other site 204722005516 active site 204722005517 catalytic site [active] 204722005518 putative DNA binding site [nucleotide binding]; other site 204722005519 metal binding site [ion binding]; metal-binding site 204722005520 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 204722005521 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 204722005522 short chain dehydrogenase; Provisional; Region: PRK09134 204722005523 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 204722005524 NADP binding site [chemical binding]; other site 204722005525 substrate binding pocket [chemical binding]; other site 204722005526 active site 204722005527 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204722005528 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 204722005529 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 204722005530 putative C-terminal domain interface [polypeptide binding]; other site 204722005531 putative GSH binding site (G-site) [chemical binding]; other site 204722005532 putative dimer interface [polypeptide binding]; other site 204722005533 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 204722005534 dimer interface [polypeptide binding]; other site 204722005535 N-terminal domain interface [polypeptide binding]; other site 204722005536 putative substrate binding pocket (H-site) [chemical binding]; other site 204722005537 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 204722005538 B1 nucleotide binding pocket [chemical binding]; other site 204722005539 B2 nucleotide binding pocket [chemical binding]; other site 204722005540 CAS motifs; other site 204722005541 active site 204722005542 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 204722005543 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 204722005544 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 204722005545 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 204722005546 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 204722005547 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 204722005548 putative [4Fe-4S] binding site [ion binding]; other site 204722005549 putative molybdopterin cofactor binding site [chemical binding]; other site 204722005550 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 204722005551 putative molybdopterin cofactor binding site; other site 204722005552 Protein of unknown function (DUF992); Region: DUF992; pfam06186 204722005553 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 204722005554 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 204722005555 active site 204722005556 substrate binding site [chemical binding]; other site 204722005557 cosubstrate binding site; other site 204722005558 catalytic site [active] 204722005559 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 204722005560 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 204722005561 dimerization interface [polypeptide binding]; other site 204722005562 putative ATP binding site [chemical binding]; other site 204722005563 Domain of unknown function DUF20; Region: UPF0118; pfam01594 204722005564 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 204722005565 hypothetical protein; Validated; Region: PRK09087 204722005566 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 204722005567 Walker A motif; other site 204722005568 ATP binding site [chemical binding]; other site 204722005569 Walker B motif; other site 204722005570 arginine finger; other site 204722005571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204722005572 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 204722005573 NAD(P) binding site [chemical binding]; other site 204722005574 active site 204722005575 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 204722005576 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 204722005577 putative NAD(P) binding site [chemical binding]; other site 204722005578 putative active site [active] 204722005579 L-lactate permease; Region: Lactate_perm; cl00701 204722005580 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 204722005581 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 204722005582 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 204722005583 active site 204722005584 catalytic site [active] 204722005585 substrate binding site [chemical binding]; other site 204722005586 Archaeal adenylate kinase [Nucleotide transport and metabolism]; Region: AdkA; COG2019 204722005587 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 204722005588 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 204722005589 non-specific DNA binding site [nucleotide binding]; other site 204722005590 salt bridge; other site 204722005591 sequence-specific DNA binding site [nucleotide binding]; other site 204722005592 Uncharacterized conserved protein [Function unknown]; Region: COG4933 204722005593 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 204722005594 Integrase core domain; Region: rve; pfam00665 204722005595 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 204722005596 AAA domain; Region: AAA_22; pfam13401 204722005597 AAA ATPase domain; Region: AAA_16; pfam13191 204722005598 TniQ; Region: TniQ; pfam06527 204722005599 Domain of unknown function (DUF955); Region: DUF955; pfam06114 204722005600 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]; Region: COG4916 204722005601 TIR domain; Region: TIR_2; pfam13676 204722005602 Bacterial SH3 domain; Region: SH3_3; pfam08239 204722005603 cystathionine beta-lyase; Provisional; Region: PRK05967 204722005604 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 204722005605 homodimer interface [polypeptide binding]; other site 204722005606 substrate-cofactor binding pocket; other site 204722005607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722005608 catalytic residue [active] 204722005609 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 204722005610 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 204722005611 active site 204722005612 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 204722005613 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 204722005614 substrate binding pocket [chemical binding]; other site 204722005615 membrane-bound complex binding site; other site 204722005616 hinge residues; other site 204722005617 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 204722005618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722005619 conserved gate region; other site 204722005620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722005621 putative PBP binding loops; other site 204722005622 dimer interface [polypeptide binding]; other site 204722005623 ABC-ATPase subunit interface; other site 204722005624 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 204722005625 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722005626 dimer interface [polypeptide binding]; other site 204722005627 conserved gate region; other site 204722005628 putative PBP binding loops; other site 204722005629 ABC-ATPase subunit interface; other site 204722005630 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 204722005631 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 204722005632 Walker A/P-loop; other site 204722005633 ATP binding site [chemical binding]; other site 204722005634 Q-loop/lid; other site 204722005635 ABC transporter signature motif; other site 204722005636 Walker B; other site 204722005637 D-loop; other site 204722005638 H-loop/switch region; other site 204722005639 salicylate hydroxylase; Provisional; Region: PRK06475 204722005640 salicylate hydroxylase; Provisional; Region: PRK08163 204722005641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 204722005642 polyphosphate kinase; Provisional; Region: PRK05443 204722005643 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 204722005644 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 204722005645 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 204722005646 putative domain interface [polypeptide binding]; other site 204722005647 putative active site [active] 204722005648 catalytic site [active] 204722005649 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 204722005650 putative domain interface [polypeptide binding]; other site 204722005651 putative active site [active] 204722005652 catalytic site [active] 204722005653 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 204722005654 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 204722005655 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 204722005656 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 204722005657 catalytic site [active] 204722005658 putative active site [active] 204722005659 putative substrate binding site [chemical binding]; other site 204722005660 HRDC domain; Region: HRDC; pfam00570 204722005661 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 204722005662 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 204722005663 dimer interface [polypeptide binding]; other site 204722005664 anticodon binding site; other site 204722005665 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 204722005666 homodimer interface [polypeptide binding]; other site 204722005667 motif 1; other site 204722005668 active site 204722005669 motif 2; other site 204722005670 GAD domain; Region: GAD; pfam02938 204722005671 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 204722005672 active site 204722005673 motif 3; other site 204722005674 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 204722005675 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 204722005676 CAP-like domain; other site 204722005677 active site 204722005678 primary dimer interface [polypeptide binding]; other site 204722005679 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204722005680 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 204722005681 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 204722005682 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 204722005683 Predicted membrane protein/domain [Function unknown]; Region: COG1714 204722005684 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 204722005685 dimer interface [polypeptide binding]; other site 204722005686 allosteric magnesium binding site [ion binding]; other site 204722005687 active site 204722005688 aspartate-rich active site metal binding site; other site 204722005689 Schiff base residues; other site 204722005690 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 204722005691 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 204722005692 substrate binding site [chemical binding]; other site 204722005693 oxyanion hole (OAH) forming residues; other site 204722005694 trimer interface [polypeptide binding]; other site 204722005695 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 204722005696 Transcriptional regulators [Transcription]; Region: MarR; COG1846 204722005697 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 204722005698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 204722005699 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 204722005700 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 204722005701 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 204722005702 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 204722005703 dimer interface [polypeptide binding]; other site 204722005704 active site 204722005705 glycine-pyridoxal phosphate binding site [chemical binding]; other site 204722005706 folate binding site [chemical binding]; other site 204722005707 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 204722005708 ATP cone domain; Region: ATP-cone; pfam03477 204722005709 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 204722005710 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 204722005711 catalytic motif [active] 204722005712 Zn binding site [ion binding]; other site 204722005713 RibD C-terminal domain; Region: RibD_C; cl17279 204722005714 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 204722005715 Lumazine binding domain; Region: Lum_binding; pfam00677 204722005716 Lumazine binding domain; Region: Lum_binding; pfam00677 204722005717 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 204722005718 homopentamer interface [polypeptide binding]; other site 204722005719 active site 204722005720 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 204722005721 putative RNA binding site [nucleotide binding]; other site 204722005722 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 204722005723 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 204722005724 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 204722005725 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 204722005726 Uncharacterized conserved protein [Function unknown]; Region: COG5452 204722005727 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 204722005728 putative phosphate acyltransferase; Provisional; Region: PRK05331 204722005729 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 204722005730 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 204722005731 dimer interface [polypeptide binding]; other site 204722005732 active site 204722005733 CoA binding pocket [chemical binding]; other site 204722005734 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 204722005735 IHF dimer interface [polypeptide binding]; other site 204722005736 IHF - DNA interface [nucleotide binding]; other site 204722005737 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 204722005738 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 204722005739 DNA binding residues [nucleotide binding] 204722005740 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 204722005741 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 204722005742 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 204722005743 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 204722005744 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 204722005745 SLBB domain; Region: SLBB; pfam10531 204722005746 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 204722005747 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 204722005748 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 204722005749 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 204722005750 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 204722005751 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 204722005752 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 204722005753 oligomer interface [polypeptide binding]; other site 204722005754 putative active site [active] 204722005755 Mn binding site [ion binding]; other site 204722005756 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 204722005757 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 204722005758 23S rRNA interface [nucleotide binding]; other site 204722005759 L3 interface [polypeptide binding]; other site 204722005760 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 204722005761 CoenzymeA binding site [chemical binding]; other site 204722005762 subunit interaction site [polypeptide binding]; other site 204722005763 PHB binding site; other site 204722005764 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 204722005765 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 204722005766 homodimer interface [polypeptide binding]; other site 204722005767 substrate-cofactor binding pocket; other site 204722005768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722005769 catalytic residue [active] 204722005770 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 204722005771 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 204722005772 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 204722005773 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 204722005774 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 204722005775 NADH dehydrogenase subunit D; Validated; Region: PRK06075 204722005776 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 204722005777 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 204722005778 putative dimer interface [polypeptide binding]; other site 204722005779 [2Fe-2S] cluster binding site [ion binding]; other site 204722005780 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 204722005781 SLBB domain; Region: SLBB; pfam10531 204722005782 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 204722005783 NADH dehydrogenase subunit G; Validated; Region: PRK09130 204722005784 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 204722005785 catalytic loop [active] 204722005786 iron binding site [ion binding]; other site 204722005787 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 204722005788 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 204722005789 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 204722005790 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 204722005791 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 204722005792 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 204722005793 4Fe-4S binding domain; Region: Fer4; pfam00037 204722005794 4Fe-4S binding domain; Region: Fer4; pfam00037 204722005795 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 204722005796 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 204722005797 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 204722005798 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 204722005799 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 204722005800 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204722005801 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 204722005802 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204722005803 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 204722005804 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204722005805 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 204722005806 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 204722005807 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 204722005808 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 204722005809 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 204722005810 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 204722005811 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722005812 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 204722005813 dimer interface [polypeptide binding]; other site 204722005814 substrate binding site [chemical binding]; other site 204722005815 metal binding site [ion binding]; metal-binding site 204722005816 Predicted secreted protein [Function unknown]; Region: COG5454 204722005817 prolyl-tRNA synthetase; Provisional; Region: PRK12325 204722005818 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 204722005819 dimer interface [polypeptide binding]; other site 204722005820 motif 1; other site 204722005821 active site 204722005822 motif 2; other site 204722005823 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 204722005824 active site 204722005825 motif 3; other site 204722005826 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 204722005827 anticodon binding site; other site 204722005828 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 204722005829 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 204722005830 FtsX-like permease family; Region: FtsX; pfam02687 204722005831 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 204722005832 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 204722005833 Walker A/P-loop; other site 204722005834 ATP binding site [chemical binding]; other site 204722005835 Q-loop/lid; other site 204722005836 ABC transporter signature motif; other site 204722005837 Walker B; other site 204722005838 D-loop; other site 204722005839 H-loop/switch region; other site 204722005840 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 204722005841 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 204722005842 putative active site [active] 204722005843 putative PHP Thumb interface [polypeptide binding]; other site 204722005844 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 204722005845 generic binding surface II; other site 204722005846 generic binding surface I; other site 204722005847 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 204722005848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 204722005849 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 204722005850 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 204722005851 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 204722005852 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 204722005853 RNA binding surface [nucleotide binding]; other site 204722005854 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 204722005855 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 204722005856 Ligand Binding Site [chemical binding]; other site 204722005857 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 204722005858 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 204722005859 active site 204722005860 putative lithium-binding site [ion binding]; other site 204722005861 substrate binding site [chemical binding]; other site 204722005862 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 204722005863 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722005864 putative substrate translocation pore; other site 204722005865 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 204722005866 putative GSH binding site [chemical binding]; other site 204722005867 catalytic residues [active] 204722005868 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 204722005869 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 204722005870 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 204722005871 dimerization interface [polypeptide binding]; other site 204722005872 ATP binding site [chemical binding]; other site 204722005873 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 204722005874 dimerization interface [polypeptide binding]; other site 204722005875 ATP binding site [chemical binding]; other site 204722005876 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 204722005877 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 204722005878 C-terminal domain interface [polypeptide binding]; other site 204722005879 GSH binding site (G-site) [chemical binding]; other site 204722005880 dimer interface [polypeptide binding]; other site 204722005881 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 204722005882 N-terminal domain interface [polypeptide binding]; other site 204722005883 dimer interface [polypeptide binding]; other site 204722005884 substrate binding pocket (H-site) [chemical binding]; other site 204722005885 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 204722005886 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 204722005887 putative active site [active] 204722005888 catalytic triad [active] 204722005889 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 204722005890 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 204722005891 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 204722005892 ATP binding site [chemical binding]; other site 204722005893 active site 204722005894 substrate binding site [chemical binding]; other site 204722005895 Uncharacterized conserved protein [Function unknown]; Region: COG5467 204722005896 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 204722005897 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 204722005898 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204722005899 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 204722005900 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_12; cd07255 204722005901 putative metal binding site [ion binding]; other site 204722005902 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 204722005903 active site 204722005904 adenylosuccinate lyase; Provisional; Region: PRK07492 204722005905 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 204722005906 tetramer interface [polypeptide binding]; other site 204722005907 active site 204722005908 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 204722005909 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 204722005910 substrate binding site [chemical binding]; other site 204722005911 hexamer interface [polypeptide binding]; other site 204722005912 metal binding site [ion binding]; metal-binding site 204722005913 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 204722005914 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 204722005915 putative acyl-acceptor binding pocket; other site 204722005916 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 204722005917 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 204722005918 putative NAD(P) binding site [chemical binding]; other site 204722005919 structural Zn binding site [ion binding]; other site 204722005920 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 204722005921 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 204722005922 dimer interface [polypeptide binding]; other site 204722005923 active site 204722005924 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 204722005925 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 204722005926 active site 204722005927 acyl carrier protein; Provisional; Region: PRK06508 204722005928 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 204722005929 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 204722005930 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 204722005931 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 204722005932 active site 204722005933 catalytic residues [active] 204722005934 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 204722005935 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 204722005936 substrate binding site [chemical binding]; other site 204722005937 ATP binding site [chemical binding]; other site 204722005938 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 204722005939 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 204722005940 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 204722005941 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 204722005942 active site 204722005943 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 204722005944 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 204722005945 active site 204722005946 motif I; other site 204722005947 motif II; other site 204722005948 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 204722005949 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 204722005950 FMN binding site [chemical binding]; other site 204722005951 active site 204722005952 catalytic residues [active] 204722005953 substrate binding site [chemical binding]; other site 204722005954 Predicted aspartyl protease [General function prediction only]; Region: COG3577 204722005955 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 204722005956 catalytic motif [active] 204722005957 Catalytic residue [active] 204722005958 Predicted Fe-S protein [General function prediction only]; Region: COG3313 204722005959 cobalamin synthase; Reviewed; Region: cobS; PRK00235 204722005960 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 204722005961 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 204722005962 putative dimer interface [polypeptide binding]; other site 204722005963 active site pocket [active] 204722005964 putative cataytic base [active] 204722005965 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204722005966 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 204722005967 putative DNA binding site [nucleotide binding]; other site 204722005968 putative Zn2+ binding site [ion binding]; other site 204722005969 AsnC family; Region: AsnC_trans_reg; pfam01037 204722005970 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 204722005971 putative uracil binding site [chemical binding]; other site 204722005972 putative active site [active] 204722005973 Staphylococcal nuclease homologues; Region: SNc; smart00318 204722005974 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 204722005975 Catalytic site; other site 204722005976 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 204722005977 Sel1-like repeats; Region: SEL1; smart00671 204722005978 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 204722005979 putative catalytic site [active] 204722005980 putative phosphate binding site [ion binding]; other site 204722005981 active site 204722005982 metal binding site A [ion binding]; metal-binding site 204722005983 DNA binding site [nucleotide binding] 204722005984 putative AP binding site [nucleotide binding]; other site 204722005985 putative metal binding site B [ion binding]; other site 204722005986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 204722005987 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 204722005988 putative metal binding site [ion binding]; other site 204722005989 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 204722005990 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 204722005991 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 204722005992 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 204722005993 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 204722005994 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 204722005995 active site 204722005996 HIGH motif; other site 204722005997 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204722005998 KMSK motif region; other site 204722005999 tRNA binding surface [nucleotide binding]; other site 204722006000 DALR anticodon binding domain; Region: DALR_1; smart00836 204722006001 anticodon binding site; other site 204722006002 Sporulation related domain; Region: SPOR; pfam05036 204722006003 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 204722006004 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 204722006005 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 204722006006 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 204722006007 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 204722006008 sec-independent translocase; Provisional; Region: PRK00708 204722006009 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 204722006010 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 204722006011 seryl-tRNA synthetase; Provisional; Region: PRK05431 204722006012 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 204722006013 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 204722006014 dimer interface [polypeptide binding]; other site 204722006015 active site 204722006016 motif 1; other site 204722006017 motif 2; other site 204722006018 motif 3; other site 204722006019 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 204722006020 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 204722006021 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 204722006022 S-adenosylmethionine binding site [chemical binding]; other site 204722006023 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 204722006024 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 204722006025 Peptidase family M23; Region: Peptidase_M23; pfam01551 204722006026 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 204722006027 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 204722006028 Walker A motif; other site 204722006029 ATP binding site [chemical binding]; other site 204722006030 Walker B motif; other site 204722006031 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 204722006032 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 204722006033 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 204722006034 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 204722006035 Protein export membrane protein; Region: SecD_SecF; pfam02355 204722006036 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 204722006037 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 204722006038 substrate binding pocket [chemical binding]; other site 204722006039 substrate-Mg2+ binding site; other site 204722006040 aspartate-rich region 1; other site 204722006041 aspartate-rich region 2; other site 204722006042 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 204722006043 Glucose inhibited division protein A; Region: GIDA; pfam01134 204722006044 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 204722006045 Predicted membrane protein [Function unknown]; Region: COG4872 204722006046 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 204722006047 trigger factor; Provisional; Region: tig; PRK01490 204722006048 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 204722006049 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 204722006050 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 204722006051 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 204722006052 GatB domain; Region: GatB_Yqey; smart00845 204722006053 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 204722006054 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 204722006055 NADH dehydrogenase; Validated; Region: PRK08183 204722006056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 204722006057 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 204722006058 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 204722006059 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 204722006060 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 204722006061 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 204722006062 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 204722006063 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 204722006064 carboxyltransferase (CT) interaction site; other site 204722006065 biotinylation site [posttranslational modification]; other site 204722006066 Dehydroquinase class II; Region: DHquinase_II; pfam01220 204722006067 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 204722006068 trimer interface [polypeptide binding]; other site 204722006069 active site 204722006070 dimer interface [polypeptide binding]; other site 204722006071 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 204722006072 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 204722006073 catalytic residues [active] 204722006074 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 204722006075 Peptidase family M48; Region: Peptidase_M48; cl12018 204722006076 aspartate aminotransferase; Provisional; Region: PRK05764 204722006077 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 204722006078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722006079 homodimer interface [polypeptide binding]; other site 204722006080 catalytic residue [active] 204722006081 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 204722006082 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 204722006083 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 204722006084 AMIN domain; Region: AMIN; pfam11741 204722006085 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 204722006086 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 204722006087 active site 204722006088 metal binding site [ion binding]; metal-binding site 204722006089 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 204722006090 Transglycosylase; Region: Transgly; pfam00912 204722006091 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 204722006092 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 204722006093 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 204722006094 dinuclear metal binding motif [ion binding]; other site 204722006095 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 204722006096 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 204722006097 catalytic triad [active] 204722006098 AsmA family; Region: AsmA; pfam05170 204722006099 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 204722006100 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 204722006101 active site 204722006102 HIGH motif; other site 204722006103 dimer interface [polypeptide binding]; other site 204722006104 KMSKS motif; other site 204722006105 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 204722006106 RNA binding surface [nucleotide binding]; other site 204722006107 Predicted molecular chaperone distantly related to HSP70-fold metalloproteases [Posttranslational modification, protein turnover, chaperones]; Region: COG2377 204722006108 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 204722006109 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 204722006110 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 204722006111 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 204722006112 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204722006113 catalytic residue [active] 204722006114 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 204722006115 putative ABC transporter; Region: ycf24; CHL00085 204722006116 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 204722006117 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 204722006118 Walker A/P-loop; other site 204722006119 ATP binding site [chemical binding]; other site 204722006120 Q-loop/lid; other site 204722006121 ABC transporter signature motif; other site 204722006122 Walker B; other site 204722006123 D-loop; other site 204722006124 H-loop/switch region; other site 204722006125 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 204722006126 FeS assembly protein SufD; Region: sufD; TIGR01981 204722006127 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 204722006128 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 204722006129 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204722006130 catalytic residue [active] 204722006131 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 204722006132 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 204722006133 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 204722006134 active site 204722006135 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 204722006136 ATP-NAD kinase; Region: NAD_kinase; pfam01513 204722006137 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 204722006138 helicase 45; Provisional; Region: PTZ00424 204722006139 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 204722006140 ATP binding site [chemical binding]; other site 204722006141 Mg++ binding site [ion binding]; other site 204722006142 motif III; other site 204722006143 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 204722006144 nucleotide binding region [chemical binding]; other site 204722006145 ATP-binding site [chemical binding]; other site 204722006146 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 204722006147 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 204722006148 metal-binding site [ion binding] 204722006149 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 204722006150 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 204722006151 S-adenosylmethionine binding site [chemical binding]; other site 204722006152 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 204722006153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 204722006154 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 204722006155 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 204722006156 HIGH motif; other site 204722006157 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 204722006158 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 204722006159 active site 204722006160 KMSKS motif; other site 204722006161 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 204722006162 tRNA binding surface [nucleotide binding]; other site 204722006163 anticodon binding site; other site 204722006164 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 204722006165 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 204722006166 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 204722006167 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 204722006168 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 204722006169 putative C-terminal domain interface [polypeptide binding]; other site 204722006170 putative GSH binding site (G-site) [chemical binding]; other site 204722006171 putative dimer interface [polypeptide binding]; other site 204722006172 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 204722006173 putative N-terminal domain interface [polypeptide binding]; other site 204722006174 putative dimer interface [polypeptide binding]; other site 204722006175 putative substrate binding pocket (H-site) [chemical binding]; other site 204722006176 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 204722006177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722006178 dimer interface [polypeptide binding]; other site 204722006179 conserved gate region; other site 204722006180 putative PBP binding loops; other site 204722006181 ABC-ATPase subunit interface; other site 204722006182 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 204722006183 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722006184 dimer interface [polypeptide binding]; other site 204722006185 conserved gate region; other site 204722006186 putative PBP binding loops; other site 204722006187 ABC-ATPase subunit interface; other site 204722006188 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 204722006189 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 204722006190 substrate binding pocket [chemical binding]; other site 204722006191 membrane-bound complex binding site; other site 204722006192 hinge residues; other site 204722006193 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 204722006194 Walker A motif; other site 204722006195 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 204722006196 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 204722006197 GTP binding site; other site 204722006198 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 204722006199 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 204722006200 FeS/SAM binding site; other site 204722006201 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 204722006202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 204722006203 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 204722006204 hypothetical protein; Provisional; Region: PRK06753 204722006205 fumarate hydratase; Provisional; Region: PRK15389 204722006206 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 204722006207 Fumarase C-terminus; Region: Fumerase_C; pfam05683 204722006208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 204722006209 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 204722006210 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 204722006211 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 204722006212 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 204722006213 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 204722006214 active site 204722006215 Int/Topo IB signature motif; other site 204722006216 catalytic residues [active] 204722006217 DNA binding site [nucleotide binding] 204722006218 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204722006219 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 204722006220 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 204722006221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 204722006222 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 204722006223 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204722006224 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 204722006225 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 204722006226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204722006227 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 204722006228 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 204722006229 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 204722006230 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 204722006231 ArsC family; Region: ArsC; pfam03960 204722006232 catalytic residues [active] 204722006233 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 204722006234 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 204722006235 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 204722006236 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 204722006237 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 204722006238 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 204722006239 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 204722006240 TMP-binding site; other site 204722006241 ATP-binding site [chemical binding]; other site 204722006242 DNA polymerase III subunit delta'; Validated; Region: PRK09112 204722006243 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 204722006244 DNA polymerase III subunit delta'; Validated; Region: PRK08485 204722006245 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 204722006246 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 204722006247 active site 204722006248 HIGH motif; other site 204722006249 KMSKS motif; other site 204722006250 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 204722006251 tRNA binding surface [nucleotide binding]; other site 204722006252 anticodon binding site; other site 204722006253 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 204722006254 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 204722006255 active site 204722006256 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 204722006257 putative hydrolase; Provisional; Region: PRK02113 204722006258 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 204722006259 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204722006260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722006261 Walker A/P-loop; other site 204722006262 ATP binding site [chemical binding]; other site 204722006263 Q-loop/lid; other site 204722006264 ABC transporter signature motif; other site 204722006265 Walker B; other site 204722006266 D-loop; other site 204722006267 H-loop/switch region; other site 204722006268 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 204722006269 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 204722006270 active site 204722006271 EamA-like transporter family; Region: EamA; pfam00892 204722006272 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 204722006273 EamA-like transporter family; Region: EamA; pfam00892 204722006274 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 204722006275 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 204722006276 motif I; other site 204722006277 active site 204722006278 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 204722006279 motif II; other site 204722006280 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 204722006281 glutamine synthetase; Provisional; Region: glnA; PRK09469 204722006282 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 204722006283 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 204722006284 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 204722006285 Nitrogen regulatory protein P-II; Region: P-II; smart00938 204722006286 Uncharacterized conserved protein [Function unknown]; Region: COG0062 204722006287 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 204722006288 putative substrate binding site [chemical binding]; other site 204722006289 putative ATP binding site [chemical binding]; other site 204722006290 phosphoglycolate phosphatase; Provisional; Region: PRK13222 204722006291 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 204722006292 motif II; other site 204722006293 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 204722006294 tetramer (dimer of dimers) interface [polypeptide binding]; other site 204722006295 active site 204722006296 dimer interface [polypeptide binding]; other site 204722006297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 204722006298 glutathione reductase; Validated; Region: PRK06116 204722006299 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204722006300 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204722006301 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 204722006302 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 204722006303 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 204722006304 NAD synthetase; Provisional; Region: PRK13981 204722006305 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 204722006306 multimer interface [polypeptide binding]; other site 204722006307 active site 204722006308 catalytic triad [active] 204722006309 protein interface 1 [polypeptide binding]; other site 204722006310 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 204722006311 homodimer interface [polypeptide binding]; other site 204722006312 NAD binding pocket [chemical binding]; other site 204722006313 ATP binding pocket [chemical binding]; other site 204722006314 Mg binding site [ion binding]; other site 204722006315 active-site loop [active] 204722006316 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 204722006317 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204722006318 active site 204722006319 HIGH motif; other site 204722006320 nucleotide binding site [chemical binding]; other site 204722006321 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 204722006322 active site 204722006323 KMSKS motif; other site 204722006324 malic enzyme; Reviewed; Region: PRK12862 204722006325 Malic enzyme, N-terminal domain; Region: malic; pfam00390 204722006326 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 204722006327 putative NAD(P) binding site [chemical binding]; other site 204722006328 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 204722006329 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 204722006330 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 204722006331 active site 204722006332 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 204722006333 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 204722006334 Permease; Region: Permease; pfam02405 204722006335 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 204722006336 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 204722006337 Walker A/P-loop; other site 204722006338 ATP binding site [chemical binding]; other site 204722006339 Q-loop/lid; other site 204722006340 ABC transporter signature motif; other site 204722006341 Walker B; other site 204722006342 D-loop; other site 204722006343 H-loop/switch region; other site 204722006344 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 204722006345 mce related protein; Region: MCE; pfam02470 204722006346 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 204722006347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 204722006348 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 204722006349 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 204722006350 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 204722006351 catalytic loop [active] 204722006352 iron binding site [ion binding]; other site 204722006353 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 204722006354 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 204722006355 dihydropteroate synthase; Region: DHPS; TIGR01496 204722006356 substrate binding pocket [chemical binding]; other site 204722006357 dimer interface [polypeptide binding]; other site 204722006358 inhibitor binding site; inhibition site 204722006359 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 204722006360 homooctamer interface [polypeptide binding]; other site 204722006361 active site 204722006362 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 204722006363 catalytic center binding site [active] 204722006364 ATP binding site [chemical binding]; other site 204722006365 Predicted membrane protein [Function unknown]; Region: COG3768 204722006366 Domain of unknown function (DUF697); Region: DUF697; cl12064 204722006367 Predicted ATPase [General function prediction only]; Region: COG3106 204722006368 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 204722006369 catalytic core [active] 204722006370 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 204722006371 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 204722006372 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 204722006373 PAS domain; Region: PAS_9; pfam13426 204722006374 putative active site [active] 204722006375 heme pocket [chemical binding]; other site 204722006376 PAS domain; Region: PAS; smart00091 204722006377 PAS fold; Region: PAS_4; pfam08448 204722006378 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722006379 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 204722006380 dimer interface [polypeptide binding]; other site 204722006381 phosphorylation site [posttranslational modification] 204722006382 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 204722006383 ATP binding site [chemical binding]; other site 204722006384 Mg2+ binding site [ion binding]; other site 204722006385 G-X-G motif; other site 204722006386 Response regulator receiver domain; Region: Response_reg; pfam00072 204722006387 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 204722006388 active site 204722006389 phosphorylation site [posttranslational modification] 204722006390 intermolecular recognition site; other site 204722006391 dimerization interface [polypeptide binding]; other site 204722006392 Predicted flavoproteins [General function prediction only]; Region: COG2081 204722006393 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204722006394 Beta-lactamase; Region: Beta-lactamase; pfam00144 204722006395 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 204722006396 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 204722006397 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 204722006398 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 204722006399 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 204722006400 active site 204722006401 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 204722006402 TSCPD domain; Region: TSCPD; pfam12637 204722006403 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_9; cd04666 204722006404 nudix motif; other site 204722006405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204722006406 active site 204722006407 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 204722006408 Ligand Binding Site [chemical binding]; other site 204722006409 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 204722006410 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 204722006411 putative MPT binding site; other site 204722006412 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 204722006413 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 204722006414 threonine dehydratase; Validated; Region: PRK08639 204722006415 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 204722006416 tetramer interface [polypeptide binding]; other site 204722006417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722006418 catalytic residue [active] 204722006419 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 204722006420 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 204722006421 DEAD-like helicases superfamily; Region: DEXDc; smart00487 204722006422 ATP binding site [chemical binding]; other site 204722006423 Mg++ binding site [ion binding]; other site 204722006424 motif III; other site 204722006425 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 204722006426 nucleotide binding region [chemical binding]; other site 204722006427 ATP-binding site [chemical binding]; other site 204722006428 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 204722006429 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 204722006430 dimer interface [polypeptide binding]; other site 204722006431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722006432 catalytic residue [active] 204722006433 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 204722006434 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 204722006435 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 204722006436 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 204722006437 active site residue [active] 204722006438 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 204722006439 active site residue [active] 204722006440 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 204722006441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722006442 Coenzyme A binding pocket [chemical binding]; other site 204722006443 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204722006444 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204722006445 metal binding site [ion binding]; metal-binding site 204722006446 active site 204722006447 I-site; other site 204722006448 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 204722006449 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 204722006450 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 204722006451 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 204722006452 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722006453 putative substrate translocation pore; other site 204722006454 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 204722006455 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722006456 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722006457 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 204722006458 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 204722006459 putative NAD(P) binding site [chemical binding]; other site 204722006460 putative substrate binding site [chemical binding]; other site 204722006461 catalytic Zn binding site [ion binding]; other site 204722006462 structural Zn binding site [ion binding]; other site 204722006463 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 204722006464 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 204722006465 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 204722006466 active site 204722006467 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 204722006468 Tetratricopeptide repeat; Region: TPR_1; pfam00515 204722006469 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 204722006470 S-adenosylmethionine binding site [chemical binding]; other site 204722006471 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 204722006472 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 204722006473 UDP-glucose 4-epimerase; Region: PLN02240 204722006474 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 204722006475 NAD binding site [chemical binding]; other site 204722006476 homodimer interface [polypeptide binding]; other site 204722006477 active site 204722006478 substrate binding site [chemical binding]; other site 204722006479 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 204722006480 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 204722006481 homodimer interface [polypeptide binding]; other site 204722006482 metal binding site [ion binding]; metal-binding site 204722006483 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 204722006484 homodimer interface [polypeptide binding]; other site 204722006485 active site 204722006486 putative chemical substrate binding site [chemical binding]; other site 204722006487 metal binding site [ion binding]; metal-binding site 204722006488 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 204722006489 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 204722006490 putative FMN binding site [chemical binding]; other site 204722006491 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 204722006492 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 204722006493 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 204722006494 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 204722006495 active site 204722006496 dimer interface [polypeptide binding]; other site 204722006497 motif 1; other site 204722006498 motif 2; other site 204722006499 motif 3; other site 204722006500 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 204722006501 anticodon binding site; other site 204722006502 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 204722006503 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 204722006504 Sporulation related domain; Region: SPOR; pfam05036 204722006505 hypothetical protein; Validated; Region: PRK00041 204722006506 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 204722006507 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 204722006508 trimerization site [polypeptide binding]; other site 204722006509 active site 204722006510 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 204722006511 homodecamer interface [polypeptide binding]; other site 204722006512 GTP cyclohydrolase I; Provisional; Region: PLN03044 204722006513 active site 204722006514 putative catalytic site residues [active] 204722006515 zinc binding site [ion binding]; other site 204722006516 GTP-CH-I/GFRP interaction surface; other site 204722006517 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 204722006518 hypothetical protein; Provisional; Region: PRK10279 204722006519 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 204722006520 nucleophile elbow; other site 204722006521 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 204722006522 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 204722006523 active site 204722006524 DNA binding site [nucleotide binding] 204722006525 Int/Topo IB signature motif; other site 204722006526 BRO family, N-terminal domain; Region: Bro-N; cl10591 204722006527 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 204722006528 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 204722006529 catalytic residues [active] 204722006530 catalytic nucleophile [active] 204722006531 Presynaptic Site I dimer interface [polypeptide binding]; other site 204722006532 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 204722006533 Synaptic Flat tetramer interface [polypeptide binding]; other site 204722006534 Synaptic Site I dimer interface [polypeptide binding]; other site 204722006535 DNA binding site [nucleotide binding] 204722006536 Prophage antirepressor [Transcription]; Region: COG3617 204722006537 BRO family, N-terminal domain; Region: Bro-N; smart01040 204722006538 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 204722006539 CoA-transferase family III; Region: CoA_transf_3; pfam02515 204722006540 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 204722006541 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 204722006542 FAD binding site [chemical binding]; other site 204722006543 substrate binding pocket [chemical binding]; other site 204722006544 catalytic base [active] 204722006545 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 204722006546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722006547 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 204722006548 dimerization interface [polypeptide binding]; other site 204722006549 substrate binding pocket [chemical binding]; other site 204722006550 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 204722006551 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 204722006552 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 204722006553 multidrug efflux protein; Reviewed; Region: PRK09579 204722006554 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204722006555 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722006556 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722006557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 204722006558 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204722006559 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 204722006560 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 204722006561 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 204722006562 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 204722006563 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 204722006564 active site 204722006565 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 204722006566 active site 204722006567 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 204722006568 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 204722006569 active site 204722006570 (T/H)XGH motif; other site 204722006571 DNA gyrase subunit A; Validated; Region: PRK05560 204722006572 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 204722006573 CAP-like domain; other site 204722006574 active site 204722006575 primary dimer interface [polypeptide binding]; other site 204722006576 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204722006577 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204722006578 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204722006579 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204722006580 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204722006581 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 204722006582 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 204722006583 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 204722006584 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722006585 DNA-binding site [nucleotide binding]; DNA binding site 204722006586 UTRA domain; Region: UTRA; pfam07702 204722006587 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 204722006588 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 204722006589 dimer interface [polypeptide binding]; other site 204722006590 ssDNA binding site [nucleotide binding]; other site 204722006591 tetramer (dimer of dimers) interface [polypeptide binding]; other site 204722006592 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 204722006593 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 204722006594 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 204722006595 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 204722006596 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 204722006597 IHF dimer interface [polypeptide binding]; other site 204722006598 IHF - DNA interface [nucleotide binding]; other site 204722006599 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 204722006600 Found in ATP-dependent protease La (LON); Region: LON; smart00464 204722006601 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 204722006602 Walker A motif; other site 204722006603 ATP binding site [chemical binding]; other site 204722006604 Walker B motif; other site 204722006605 arginine finger; other site 204722006606 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 204722006607 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 204722006608 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 204722006609 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 204722006610 Walker A motif; other site 204722006611 ATP binding site [chemical binding]; other site 204722006612 Walker B motif; other site 204722006613 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 204722006614 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 204722006615 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 204722006616 oligomer interface [polypeptide binding]; other site 204722006617 active site residues [active] 204722006618 GTPases [General function prediction only]; Region: HflX; COG2262 204722006619 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 204722006620 HflX GTPase family; Region: HflX; cd01878 204722006621 G1 box; other site 204722006622 GTP/Mg2+ binding site [chemical binding]; other site 204722006623 Switch I region; other site 204722006624 G2 box; other site 204722006625 G3 box; other site 204722006626 Switch II region; other site 204722006627 G4 box; other site 204722006628 G5 box; other site 204722006629 bacterial Hfq-like; Region: Hfq; cd01716 204722006630 hexamer interface [polypeptide binding]; other site 204722006631 Sm1 motif; other site 204722006632 RNA binding site [nucleotide binding]; other site 204722006633 Sm2 motif; other site 204722006634 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 204722006635 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 204722006636 TrkA-N domain; Region: TrkA_N; pfam02254 204722006637 TrkA-C domain; Region: TrkA_C; pfam02080 204722006638 TrkA-N domain; Region: TrkA_N; pfam02254 204722006639 TrkA-C domain; Region: TrkA_C; pfam02080 204722006640 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 204722006641 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 204722006642 active site 204722006643 phosphorylation site [posttranslational modification] 204722006644 intermolecular recognition site; other site 204722006645 dimerization interface [polypeptide binding]; other site 204722006646 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 204722006647 Walker A motif; other site 204722006648 ATP binding site [chemical binding]; other site 204722006649 Walker B motif; other site 204722006650 arginine finger; other site 204722006651 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 204722006652 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 204722006653 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 204722006654 dimerization interface [polypeptide binding]; other site 204722006655 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 204722006656 dimer interface [polypeptide binding]; other site 204722006657 phosphorylation site [posttranslational modification] 204722006658 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 204722006659 ATP binding site [chemical binding]; other site 204722006660 Mg2+ binding site [ion binding]; other site 204722006661 G-X-G motif; other site 204722006662 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 204722006663 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 204722006664 active site 204722006665 phosphorylation site [posttranslational modification] 204722006666 intermolecular recognition site; other site 204722006667 dimerization interface [polypeptide binding]; other site 204722006668 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 204722006669 Walker A motif; other site 204722006670 ATP binding site [chemical binding]; other site 204722006671 Walker B motif; other site 204722006672 arginine finger; other site 204722006673 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 204722006674 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 204722006675 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 204722006676 dimer interface [polypeptide binding]; other site 204722006677 phosphorylation site [posttranslational modification] 204722006678 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 204722006679 ATP binding site [chemical binding]; other site 204722006680 Mg2+ binding site [ion binding]; other site 204722006681 G-X-G motif; other site 204722006682 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 204722006683 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 204722006684 FMN binding site [chemical binding]; other site 204722006685 active site 204722006686 catalytic residues [active] 204722006687 substrate binding site [chemical binding]; other site 204722006688 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 204722006689 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 204722006690 substrate binding site; other site 204722006691 dimer interface; other site 204722006692 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 204722006693 homotrimer interaction site [polypeptide binding]; other site 204722006694 zinc binding site [ion binding]; other site 204722006695 CDP-binding sites; other site 204722006696 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 204722006697 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 204722006698 classical (c) SDRs; Region: SDR_c; cd05233 204722006699 NAD(P) binding site [chemical binding]; other site 204722006700 active site 204722006701 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 204722006702 putative coenzyme Q binding site [chemical binding]; other site 204722006703 lipoyl synthase; Provisional; Region: PRK05481 204722006704 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 204722006705 FeS/SAM binding site; other site 204722006706 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 204722006707 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 204722006708 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204722006709 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 204722006710 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 204722006711 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 204722006712 E3 interaction surface; other site 204722006713 lipoyl attachment site [posttranslational modification]; other site 204722006714 e3 binding domain; Region: E3_binding; pfam02817 204722006715 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 204722006716 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 204722006717 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 204722006718 E3 interaction surface; other site 204722006719 lipoyl attachment site [posttranslational modification]; other site 204722006720 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 204722006721 alpha subunit interface [polypeptide binding]; other site 204722006722 TPP binding site [chemical binding]; other site 204722006723 heterodimer interface [polypeptide binding]; other site 204722006724 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 204722006725 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 204722006726 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 204722006727 tetramer interface [polypeptide binding]; other site 204722006728 TPP-binding site [chemical binding]; other site 204722006729 heterodimer interface [polypeptide binding]; other site 204722006730 phosphorylation loop region [posttranslational modification] 204722006731 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 204722006732 Septum formation initiator; Region: DivIC; pfam04977 204722006733 Methyltransferase domain; Region: Methyltransf_23; pfam13489 204722006734 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 204722006735 S-adenosylmethionine binding site [chemical binding]; other site 204722006736 enolase; Provisional; Region: eno; PRK00077 204722006737 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 204722006738 dimer interface [polypeptide binding]; other site 204722006739 metal binding site [ion binding]; metal-binding site 204722006740 substrate binding pocket [chemical binding]; other site 204722006741 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 204722006742 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 204722006743 CTP synthetase; Validated; Region: pyrG; PRK05380 204722006744 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 204722006745 Catalytic site [active] 204722006746 active site 204722006747 UTP binding site [chemical binding]; other site 204722006748 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 204722006749 active site 204722006750 putative oxyanion hole; other site 204722006751 catalytic triad [active] 204722006752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 204722006753 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 204722006754 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 204722006755 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 204722006756 triosephosphate isomerase; Provisional; Region: PRK14565 204722006757 substrate binding site [chemical binding]; other site 204722006758 dimer interface [polypeptide binding]; other site 204722006759 catalytic triad [active] 204722006760 SurA N-terminal domain; Region: SurA_N_3; cl07813 204722006761 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 204722006762 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 204722006763 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 204722006764 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 204722006765 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 204722006766 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 204722006767 active site 204722006768 ribulose/triose binding site [chemical binding]; other site 204722006769 phosphate binding site [ion binding]; other site 204722006770 substrate (anthranilate) binding pocket [chemical binding]; other site 204722006771 product (indole) binding pocket [chemical binding]; other site 204722006772 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 204722006773 trimer interface [polypeptide binding]; other site 204722006774 dimer interface [polypeptide binding]; other site 204722006775 putative active site [active] 204722006776 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 204722006777 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 204722006778 dimer interface [polypeptide binding]; other site 204722006779 putative functional site; other site 204722006780 putative MPT binding site; other site 204722006781 LexA repressor; Validated; Region: PRK00215 204722006782 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 204722006783 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 204722006784 Catalytic site [active] 204722006785 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 204722006786 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 204722006787 Competence protein; Region: Competence; pfam03772 204722006788 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 204722006789 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204722006790 active site 204722006791 HIGH motif; other site 204722006792 nucleotide binding site [chemical binding]; other site 204722006793 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 204722006794 active site 204722006795 KMSKS motif; other site 204722006796 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 204722006797 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 204722006798 dimer interface [polypeptide binding]; other site 204722006799 active site 204722006800 citrylCoA binding site [chemical binding]; other site 204722006801 NADH binding [chemical binding]; other site 204722006802 cationic pore residues; other site 204722006803 oxalacetate/citrate binding site [chemical binding]; other site 204722006804 coenzyme A binding site [chemical binding]; other site 204722006805 catalytic triad [active] 204722006806 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 204722006807 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 204722006808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 204722006809 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 204722006810 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 204722006811 active site 204722006812 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 204722006813 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 204722006814 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 204722006815 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 204722006816 trimer interface [polypeptide binding]; other site 204722006817 active site 204722006818 UDP-GlcNAc binding site [chemical binding]; other site 204722006819 lipid binding site [chemical binding]; lipid-binding site 204722006820 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 204722006821 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 204722006822 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204722006823 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204722006824 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204722006825 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204722006826 Surface antigen; Region: Bac_surface_Ag; pfam01103 204722006827 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 204722006828 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 204722006829 active site 204722006830 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 204722006831 protein binding site [polypeptide binding]; other site 204722006832 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 204722006833 putative substrate binding region [chemical binding]; other site 204722006834 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 204722006835 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 204722006836 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 204722006837 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 204722006838 catalytic residue [active] 204722006839 putative FPP diphosphate binding site; other site 204722006840 putative FPP binding hydrophobic cleft; other site 204722006841 dimer interface [polypeptide binding]; other site 204722006842 putative IPP diphosphate binding site; other site 204722006843 ribosome recycling factor; Reviewed; Region: frr; PRK00083 204722006844 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 204722006845 hinge region; other site 204722006846 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 204722006847 putative nucleotide binding site [chemical binding]; other site 204722006848 uridine monophosphate binding site [chemical binding]; other site 204722006849 homohexameric interface [polypeptide binding]; other site 204722006850 elongation factor Ts; Provisional; Region: tsf; PRK09377 204722006851 UBA/TS-N domain; Region: UBA; pfam00627 204722006852 Elongation factor TS; Region: EF_TS; pfam00889 204722006853 Elongation factor TS; Region: EF_TS; pfam00889 204722006854 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 204722006855 rRNA interaction site [nucleotide binding]; other site 204722006856 S8 interaction site; other site 204722006857 putative laminin-1 binding site; other site 204722006858 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 204722006859 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 204722006860 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 204722006861 homotrimer interaction site [polypeptide binding]; other site 204722006862 putative active site [active] 204722006863 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 204722006864 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 204722006865 putative active site [active] 204722006866 catalytic site [active] 204722006867 putative metal binding site [ion binding]; other site 204722006868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 204722006869 Protein of unknown function, DUF482; Region: DUF482; pfam04339 204722006870 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 204722006871 HIT family signature motif; other site 204722006872 catalytic residue [active] 204722006873 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 204722006874 Clp amino terminal domain; Region: Clp_N; pfam02861 204722006875 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 204722006876 Walker A motif; other site 204722006877 ATP binding site [chemical binding]; other site 204722006878 Walker B motif; other site 204722006879 arginine finger; other site 204722006880 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 204722006881 Walker A motif; other site 204722006882 ATP binding site [chemical binding]; other site 204722006883 Walker B motif; other site 204722006884 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 204722006885 Uncharacterized conserved protein [Function unknown]; Region: COG2127 204722006886 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 204722006887 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 204722006888 Sporulation related domain; Region: SPOR; pfam05036 204722006889 Uncharacterized conserved protein [Function unknown]; Region: COG5458 204722006890 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 204722006891 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 204722006892 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 204722006893 Uncharacterized conserved protein [Function unknown]; Region: COG1434 204722006894 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 204722006895 putative active site [active] 204722006896 Predicted membrane protein [Function unknown]; Region: COG3503 204722006897 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 204722006898 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 204722006899 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 204722006900 DNA binding residues [nucleotide binding] 204722006901 putative dimer interface [polypeptide binding]; other site 204722006902 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 204722006903 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 204722006904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 204722006905 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 204722006906 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 204722006907 non-specific DNA binding site [nucleotide binding]; other site 204722006908 salt bridge; other site 204722006909 sequence-specific DNA binding site [nucleotide binding]; other site 204722006910 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 204722006911 Domain of unknown function (DUF955); Region: DUF955; pfam06114 204722006912 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 204722006913 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 204722006914 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 204722006915 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 204722006916 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 204722006917 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 204722006918 carboxyltransferase (CT) interaction site; other site 204722006919 biotinylation site [posttranslational modification]; other site 204722006920 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 204722006921 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 204722006922 active site 204722006923 substrate binding site [chemical binding]; other site 204722006924 coenzyme B12 binding site [chemical binding]; other site 204722006925 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 204722006926 B12 binding site [chemical binding]; other site 204722006927 cobalt ligand [ion binding]; other site 204722006928 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 204722006929 DctM-like transporters; Region: DctM; pfam06808 204722006930 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 204722006931 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 204722006932 glutamate racemase; Provisional; Region: PRK00865 204722006933 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 204722006934 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 204722006935 intracellular protease, PfpI family; Region: PfpI; TIGR01382 204722006936 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 204722006937 conserved cys residue [active] 204722006938 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 204722006939 isocitrate dehydrogenase; Validated; Region: PRK08299 204722006940 alkaline phosphatase; Provisional; Region: PRK10518 204722006941 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 204722006942 dimer interface [polypeptide binding]; other site 204722006943 active site 204722006944 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 204722006945 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 204722006946 motif 1; other site 204722006947 active site 204722006948 motif 2; other site 204722006949 motif 3; other site 204722006950 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 204722006951 recombinase A; Provisional; Region: recA; PRK09354 204722006952 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 204722006953 hexamer interface [polypeptide binding]; other site 204722006954 Walker A motif; other site 204722006955 ATP binding site [chemical binding]; other site 204722006956 Walker B motif; other site 204722006957 putative outer membrane lipoprotein; Provisional; Region: PRK10510 204722006958 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204722006959 ligand binding site [chemical binding]; other site 204722006960 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 204722006961 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204722006962 catalytic residue [active] 204722006963 recombination factor protein RarA; Reviewed; Region: PRK13342 204722006964 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 204722006965 Walker A motif; other site 204722006966 ATP binding site [chemical binding]; other site 204722006967 Walker B motif; other site 204722006968 arginine finger; other site 204722006969 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 204722006970 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 204722006971 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 204722006972 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 204722006973 protein binding site [polypeptide binding]; other site 204722006974 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 204722006975 protein binding site [polypeptide binding]; other site 204722006976 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 204722006977 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 204722006978 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 204722006979 alphaNTD homodimer interface [polypeptide binding]; other site 204722006980 alphaNTD - beta interaction site [polypeptide binding]; other site 204722006981 alphaNTD - beta' interaction site [polypeptide binding]; other site 204722006982 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 204722006983 30S ribosomal protein S11; Validated; Region: PRK05309 204722006984 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 204722006985 30S ribosomal protein S13; Region: bact_S13; TIGR03631 204722006986 adenylate kinase; Reviewed; Region: adk; PRK00279 204722006987 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 204722006988 AMP-binding site [chemical binding]; other site 204722006989 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 204722006990 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 204722006991 SecY translocase; Region: SecY; pfam00344 204722006992 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 204722006993 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 204722006994 23S rRNA binding site [nucleotide binding]; other site 204722006995 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 204722006996 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 204722006997 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 204722006998 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 204722006999 5S rRNA interface [nucleotide binding]; other site 204722007000 23S rRNA interface [nucleotide binding]; other site 204722007001 L5 interface [polypeptide binding]; other site 204722007002 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 204722007003 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 204722007004 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 204722007005 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 204722007006 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 204722007007 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 204722007008 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 204722007009 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 204722007010 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 204722007011 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 204722007012 RNA binding site [nucleotide binding]; other site 204722007013 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 204722007014 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 204722007015 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 204722007016 23S rRNA interface [nucleotide binding]; other site 204722007017 putative translocon interaction site; other site 204722007018 signal recognition particle (SRP54) interaction site; other site 204722007019 L23 interface [polypeptide binding]; other site 204722007020 trigger factor interaction site; other site 204722007021 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 204722007022 23S rRNA interface [nucleotide binding]; other site 204722007023 5S rRNA interface [nucleotide binding]; other site 204722007024 putative antibiotic binding site [chemical binding]; other site 204722007025 L25 interface [polypeptide binding]; other site 204722007026 L27 interface [polypeptide binding]; other site 204722007027 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 204722007028 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 204722007029 G-X-X-G motif; other site 204722007030 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 204722007031 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 204722007032 putative translocon binding site; other site 204722007033 protein-rRNA interface [nucleotide binding]; other site 204722007034 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 204722007035 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 204722007036 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 204722007037 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 204722007038 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 204722007039 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 204722007040 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 204722007041 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 204722007042 elongation factor Tu; Reviewed; Region: PRK00049 204722007043 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 204722007044 G1 box; other site 204722007045 GEF interaction site [polypeptide binding]; other site 204722007046 GTP/Mg2+ binding site [chemical binding]; other site 204722007047 Switch I region; other site 204722007048 G2 box; other site 204722007049 G3 box; other site 204722007050 Switch II region; other site 204722007051 G4 box; other site 204722007052 G5 box; other site 204722007053 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 204722007054 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 204722007055 Antibiotic Binding Site [chemical binding]; other site 204722007056 elongation factor G; Reviewed; Region: PRK00007 204722007057 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 204722007058 G1 box; other site 204722007059 putative GEF interaction site [polypeptide binding]; other site 204722007060 GTP/Mg2+ binding site [chemical binding]; other site 204722007061 Switch I region; other site 204722007062 G2 box; other site 204722007063 G3 box; other site 204722007064 Switch II region; other site 204722007065 G4 box; other site 204722007066 G5 box; other site 204722007067 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 204722007068 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 204722007069 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 204722007070 30S ribosomal protein S7; Validated; Region: PRK05302 204722007071 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 204722007072 S17 interaction site [polypeptide binding]; other site 204722007073 S8 interaction site; other site 204722007074 16S rRNA interaction site [nucleotide binding]; other site 204722007075 streptomycin interaction site [chemical binding]; other site 204722007076 23S rRNA interaction site [nucleotide binding]; other site 204722007077 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 204722007078 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 204722007079 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 204722007080 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 204722007081 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 204722007082 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 204722007083 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 204722007084 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 204722007085 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 204722007086 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 204722007087 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 204722007088 DNA binding site [nucleotide binding] 204722007089 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 204722007090 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 204722007091 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 204722007092 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 204722007093 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 204722007094 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 204722007095 RPB11 interaction site [polypeptide binding]; other site 204722007096 RPB12 interaction site [polypeptide binding]; other site 204722007097 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 204722007098 RPB1 interaction site [polypeptide binding]; other site 204722007099 RPB11 interaction site [polypeptide binding]; other site 204722007100 RPB10 interaction site [polypeptide binding]; other site 204722007101 RPB3 interaction site [polypeptide binding]; other site 204722007102 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 204722007103 L11 interface [polypeptide binding]; other site 204722007104 putative EF-Tu interaction site [polypeptide binding]; other site 204722007105 putative EF-G interaction site [polypeptide binding]; other site 204722007106 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 204722007107 23S rRNA interface [nucleotide binding]; other site 204722007108 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 204722007109 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 204722007110 mRNA/rRNA interface [nucleotide binding]; other site 204722007111 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 204722007112 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 204722007113 23S rRNA interface [nucleotide binding]; other site 204722007114 L7/L12 interface [polypeptide binding]; other site 204722007115 putative thiostrepton binding site; other site 204722007116 L25 interface [polypeptide binding]; other site 204722007117 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 204722007118 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 204722007119 putative homodimer interface [polypeptide binding]; other site 204722007120 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 204722007121 heterodimer interface [polypeptide binding]; other site 204722007122 homodimer interface [polypeptide binding]; other site 204722007123 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 204722007124 elongation factor Tu; Reviewed; Region: PRK00049 204722007125 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 204722007126 G1 box; other site 204722007127 GEF interaction site [polypeptide binding]; other site 204722007128 GTP/Mg2+ binding site [chemical binding]; other site 204722007129 Switch I region; other site 204722007130 G2 box; other site 204722007131 G3 box; other site 204722007132 Switch II region; other site 204722007133 G4 box; other site 204722007134 G5 box; other site 204722007135 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 204722007136 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 204722007137 Antibiotic Binding Site [chemical binding]; other site 204722007138 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 204722007139 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 204722007140 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 204722007141 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 204722007142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 204722007143 PAS domain; Region: PAS_5; pfam07310 204722007144 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 204722007145 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 204722007146 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 204722007147 trimer interface [polypeptide binding]; other site 204722007148 putative metal binding site [ion binding]; other site 204722007149 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 204722007150 serine acetyltransferase; Provisional; Region: cysE; PRK11132 204722007151 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 204722007152 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 204722007153 trimer interface [polypeptide binding]; other site 204722007154 active site 204722007155 substrate binding site [chemical binding]; other site 204722007156 CoA binding site [chemical binding]; other site 204722007157 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 204722007158 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 204722007159 Uncharacterized conserved protein [Function unknown]; Region: COG1430 204722007160 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 204722007161 DNA-binding site [nucleotide binding]; DNA binding site 204722007162 RNA-binding motif; other site 204722007163 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 204722007164 DNA-binding site [nucleotide binding]; DNA binding site 204722007165 RNA-binding motif; other site 204722007166 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722007167 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 204722007168 dimer interface [polypeptide binding]; other site 204722007169 active site 204722007170 metal binding site [ion binding]; metal-binding site 204722007171 glutathione binding site [chemical binding]; other site 204722007172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 204722007173 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 204722007174 DHH family; Region: DHH; pfam01368 204722007175 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 204722007176 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 204722007177 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204722007178 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 204722007179 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 204722007180 putative active site [active] 204722007181 homoserine dehydrogenase; Provisional; Region: PRK06349 204722007182 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 204722007183 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 204722007184 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 204722007185 aminotransferase; Validated; Region: PRK09148 204722007186 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 204722007187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722007188 homodimer interface [polypeptide binding]; other site 204722007189 catalytic residue [active] 204722007190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 204722007191 Peptidase M15; Region: Peptidase_M15_3; cl01194 204722007192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 204722007193 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 204722007194 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 204722007195 active site 204722007196 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 204722007197 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 204722007198 MPN+ (JAMM) motif; other site 204722007199 Zinc-binding site [ion binding]; other site 204722007200 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204722007201 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 204722007202 active site 204722007203 SAM binding site [chemical binding]; other site 204722007204 putative homodimer interface [polypeptide binding]; other site 204722007205 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 204722007206 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 204722007207 S-adenosylmethionine binding site [chemical binding]; other site 204722007208 precorrin-3B synthase; Region: CobG; TIGR02435 204722007209 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 204722007210 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 204722007211 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 204722007212 Precorrin-8X methylmutase; Region: CbiC; pfam02570 204722007213 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 204722007214 active site 204722007215 SAM binding site [chemical binding]; other site 204722007216 homodimer interface [polypeptide binding]; other site 204722007217 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 204722007218 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 204722007219 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 204722007220 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 204722007221 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 204722007222 active site 204722007223 SAM binding site [chemical binding]; other site 204722007224 homodimer interface [polypeptide binding]; other site 204722007225 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 204722007226 Flavin Reductases; Region: FlaRed; cl00801 204722007227 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204722007228 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 204722007229 ligand binding site [chemical binding]; other site 204722007230 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 204722007231 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 204722007232 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 204722007233 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 204722007234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722007235 homodimer interface [polypeptide binding]; other site 204722007236 catalytic residue [active] 204722007237 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 204722007238 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 204722007239 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 204722007240 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 204722007241 active site 204722007242 SAM binding site [chemical binding]; other site 204722007243 homodimer interface [polypeptide binding]; other site 204722007244 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 204722007245 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 204722007246 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 204722007247 active site 204722007248 SAM binding site [chemical binding]; other site 204722007249 homodimer interface [polypeptide binding]; other site 204722007250 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 204722007251 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 204722007252 tellurium resistance terB-like protein; Region: terB_like; cd07177 204722007253 metal binding site [ion binding]; metal-binding site 204722007254 hypothetical protein; Provisional; Region: PRK10621 204722007255 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204722007256 Predicted membrane protein [Function unknown]; Region: COG2510 204722007257 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 204722007258 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 204722007259 homodimer interface [polypeptide binding]; other site 204722007260 Walker A motif; other site 204722007261 ATP binding site [chemical binding]; other site 204722007262 hydroxycobalamin binding site [chemical binding]; other site 204722007263 Walker B motif; other site 204722007264 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 204722007265 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 204722007266 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 204722007267 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 204722007268 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 204722007269 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 204722007270 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 204722007271 homotrimer interface [polypeptide binding]; other site 204722007272 Walker A motif; other site 204722007273 GTP binding site [chemical binding]; other site 204722007274 Walker B motif; other site 204722007275 Predicted integral membrane protein [Function unknown]; Region: COG5446 204722007276 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 204722007277 cobyric acid synthase; Provisional; Region: PRK00784 204722007278 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 204722007279 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 204722007280 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 204722007281 catalytic triad [active] 204722007282 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 204722007283 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 204722007284 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 204722007285 Predicted small secreted protein [Function unknown]; Region: COG5510 204722007286 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 204722007287 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 204722007288 conserved cys residue [active] 204722007289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722007290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204722007291 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 204722007292 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 204722007293 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 204722007294 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 204722007295 Protein export membrane protein; Region: SecD_SecF; pfam02355 204722007296 putative cation:proton antiport protein; Provisional; Region: PRK10669 204722007297 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 204722007298 TrkA-N domain; Region: TrkA_N; pfam02254 204722007299 Predicted integral membrane protein [Function unknown]; Region: COG0392 204722007300 Serine hydrolase; Region: Ser_hydrolase; pfam06821 204722007301 sulfate transport protein; Provisional; Region: cysT; CHL00187 204722007302 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722007303 dimer interface [polypeptide binding]; other site 204722007304 conserved gate region; other site 204722007305 putative PBP binding loops; other site 204722007306 ABC-ATPase subunit interface; other site 204722007307 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 204722007308 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722007309 dimer interface [polypeptide binding]; other site 204722007310 conserved gate region; other site 204722007311 putative PBP binding loops; other site 204722007312 ABC-ATPase subunit interface; other site 204722007313 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 204722007314 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 204722007315 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 204722007316 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 204722007317 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 204722007318 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 204722007319 Transporter associated domain; Region: CorC_HlyC; smart01091 204722007320 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 204722007321 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 204722007322 EF-hand domain pair; Region: EF_hand_5; pfam13499 204722007323 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 204722007324 Ca2+ binding site [ion binding]; other site 204722007325 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 204722007326 Ca2+ binding site [ion binding]; other site 204722007327 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 204722007328 short chain dehydrogenase; Provisional; Region: PRK06198 204722007329 classical (c) SDRs; Region: SDR_c; cd05233 204722007330 NAD(P) binding site [chemical binding]; other site 204722007331 active site 204722007332 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 204722007333 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 204722007334 Walker A/P-loop; other site 204722007335 ATP binding site [chemical binding]; other site 204722007336 Q-loop/lid; other site 204722007337 ABC transporter signature motif; other site 204722007338 Walker B; other site 204722007339 D-loop; other site 204722007340 H-loop/switch region; other site 204722007341 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722007342 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 204722007343 TM-ABC transporter signature motif; other site 204722007344 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 204722007345 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 204722007346 putative ligand binding site [chemical binding]; other site 204722007347 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722007348 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722007349 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 204722007350 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 204722007351 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 204722007352 Walker A/P-loop; other site 204722007353 ATP binding site [chemical binding]; other site 204722007354 Q-loop/lid; other site 204722007355 ABC transporter signature motif; other site 204722007356 Walker B; other site 204722007357 D-loop; other site 204722007358 H-loop/switch region; other site 204722007359 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 204722007360 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 204722007361 ABC-ATPase subunit interface; other site 204722007362 dimer interface [polypeptide binding]; other site 204722007363 putative PBP binding regions; other site 204722007364 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 204722007365 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 204722007366 intersubunit interface [polypeptide binding]; other site 204722007367 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 204722007368 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 204722007369 N-terminal plug; other site 204722007370 ligand-binding site [chemical binding]; other site 204722007371 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 204722007372 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 204722007373 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 204722007374 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 204722007375 Walker A/P-loop; other site 204722007376 ATP binding site [chemical binding]; other site 204722007377 Q-loop/lid; other site 204722007378 ABC transporter signature motif; other site 204722007379 Walker B; other site 204722007380 D-loop; other site 204722007381 H-loop/switch region; other site 204722007382 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 204722007383 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 204722007384 Walker A/P-loop; other site 204722007385 ATP binding site [chemical binding]; other site 204722007386 Q-loop/lid; other site 204722007387 ABC transporter signature motif; other site 204722007388 Walker B; other site 204722007389 D-loop; other site 204722007390 H-loop/switch region; other site 204722007391 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 204722007392 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 204722007393 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 204722007394 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722007395 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722007396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 204722007397 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 204722007398 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 204722007399 alpha-gamma subunit interface [polypeptide binding]; other site 204722007400 beta-gamma subunit interface [polypeptide binding]; other site 204722007401 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 204722007402 alpha-beta subunit interface [polypeptide binding]; other site 204722007403 urease subunit alpha; Reviewed; Region: ureC; PRK13309 204722007404 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 204722007405 subunit interactions [polypeptide binding]; other site 204722007406 active site 204722007407 flap region; other site 204722007408 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 204722007409 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 204722007410 dimer interface [polypeptide binding]; other site 204722007411 catalytic residues [active] 204722007412 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 204722007413 UreF; Region: UreF; pfam01730 204722007414 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 204722007415 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 204722007416 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 204722007417 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 204722007418 cobalt transport protein CbiM; Validated; Region: PRK06265 204722007419 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 204722007420 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 204722007421 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 204722007422 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 204722007423 Walker A/P-loop; other site 204722007424 ATP binding site [chemical binding]; other site 204722007425 Q-loop/lid; other site 204722007426 ABC transporter signature motif; other site 204722007427 Walker B; other site 204722007428 D-loop; other site 204722007429 H-loop/switch region; other site 204722007430 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK01636 204722007431 Uncharacterized conserved protein [Function unknown]; Region: COG3439 204722007432 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 204722007433 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 204722007434 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 204722007435 BA14K-like protein; Region: BA14K; pfam07886 204722007436 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 204722007437 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 204722007438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722007439 homodimer interface [polypeptide binding]; other site 204722007440 catalytic residue [active] 204722007441 ketol-acid reductoisomerase; Provisional; Region: PRK05479 204722007442 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 204722007443 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 204722007444 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 204722007445 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204722007446 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 204722007447 potassium uptake protein; Region: kup; TIGR00794 204722007448 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; cl00541 204722007449 active site 204722007450 hydrophilic channel; other site 204722007451 dimerization interface [polypeptide binding]; other site 204722007452 catalytic residues [active] 204722007453 active site lid [active] 204722007454 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 204722007455 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 204722007456 AAA domain; Region: AAA_30; pfam13604 204722007457 Family description; Region: UvrD_C_2; pfam13538 204722007458 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 204722007459 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 204722007460 putative valine binding site [chemical binding]; other site 204722007461 dimer interface [polypeptide binding]; other site 204722007462 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 204722007463 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 204722007464 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 204722007465 PYR/PP interface [polypeptide binding]; other site 204722007466 dimer interface [polypeptide binding]; other site 204722007467 TPP binding site [chemical binding]; other site 204722007468 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 204722007469 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 204722007470 TPP-binding site [chemical binding]; other site 204722007471 dimer interface [polypeptide binding]; other site 204722007472 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 204722007473 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 204722007474 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 204722007475 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 204722007476 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 204722007477 motif II; other site 204722007478 Predicted flavoproteins [General function prediction only]; Region: COG2081 204722007479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204722007480 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 204722007481 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 204722007482 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 204722007483 protein binding site [polypeptide binding]; other site 204722007484 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 204722007485 protein binding site [polypeptide binding]; other site 204722007486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 204722007487 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 204722007488 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 204722007489 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 204722007490 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 204722007491 HflK protein; Region: hflK; TIGR01933 204722007492 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 204722007493 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 204722007494 folate binding site [chemical binding]; other site 204722007495 NADP+ binding site [chemical binding]; other site 204722007496 thymidylate synthase; Reviewed; Region: thyA; PRK01827 204722007497 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 204722007498 dimerization interface [polypeptide binding]; other site 204722007499 active site 204722007500 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 204722007501 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722007502 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 204722007503 putative substrate translocation pore; other site 204722007504 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 204722007505 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204722007506 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 204722007507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 204722007508 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 204722007509 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 204722007510 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 204722007511 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 204722007512 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 204722007513 FAD binding domain; Region: FAD_binding_4; pfam01565 204722007514 Uncharacterized conserved protein [Function unknown]; Region: COG4702 204722007515 serine/threonine protein kinase; Provisional; Region: PRK09188 204722007516 serine/threonine protein kinase; Provisional; Region: PRK12274 204722007517 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 204722007518 Part of AAA domain; Region: AAA_19; pfam13245 204722007519 Family description; Region: UvrD_C_2; pfam13538 204722007520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 204722007521 CreA protein; Region: CreA; pfam05981 204722007522 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 204722007523 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 204722007524 trimer interface [polypeptide binding]; other site 204722007525 active site 204722007526 substrate binding site [chemical binding]; other site 204722007527 CoA binding site [chemical binding]; other site 204722007528 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 204722007529 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 204722007530 Cu(I) binding site [ion binding]; other site 204722007531 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 204722007532 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 204722007533 S-adenosylmethionine binding site [chemical binding]; other site 204722007534 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 204722007535 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 204722007536 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 204722007537 active site 204722007538 Uncharacterized conserved protein [Function unknown]; Region: COG5587 204722007539 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 204722007540 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 204722007541 nucleotide binding pocket [chemical binding]; other site 204722007542 K-X-D-G motif; other site 204722007543 catalytic site [active] 204722007544 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 204722007545 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 204722007546 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 204722007547 Dimer interface [polypeptide binding]; other site 204722007548 BRCT sequence motif; other site 204722007549 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 204722007550 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 204722007551 Walker A/P-loop; other site 204722007552 ATP binding site [chemical binding]; other site 204722007553 Q-loop/lid; other site 204722007554 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 204722007555 ABC transporter signature motif; other site 204722007556 Walker B; other site 204722007557 D-loop; other site 204722007558 H-loop/switch region; other site 204722007559 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 204722007560 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 204722007561 binding surface 204722007562 TPR motif; other site 204722007563 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 204722007564 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 204722007565 cell division protein FtsZ; Validated; Region: PRK09330 204722007566 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 204722007567 nucleotide binding site [chemical binding]; other site 204722007568 SulA interaction site; other site 204722007569 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 204722007570 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 204722007571 Cell division protein FtsA; Region: FtsA; smart00842 204722007572 Cell division protein FtsA; Region: FtsA; pfam14450 204722007573 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 204722007574 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 204722007575 Cell division protein FtsQ; Region: FtsQ; pfam03799 204722007576 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 204722007577 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 204722007578 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204722007579 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 204722007580 FAD binding domain; Region: FAD_binding_4; pfam01565 204722007581 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 204722007582 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 204722007583 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 204722007584 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204722007585 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 204722007586 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 204722007587 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 204722007588 active site 204722007589 homodimer interface [polypeptide binding]; other site 204722007590 cell division protein FtsW; Region: ftsW; TIGR02614 204722007591 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 204722007592 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 204722007593 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204722007594 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 204722007595 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 204722007596 Mg++ binding site [ion binding]; other site 204722007597 putative catalytic motif [active] 204722007598 putative substrate binding site [chemical binding]; other site 204722007599 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 204722007600 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 204722007601 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204722007602 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 204722007603 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 204722007604 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 204722007605 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204722007606 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 204722007607 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 204722007608 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 204722007609 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 204722007610 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 204722007611 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 204722007612 MraW methylase family; Region: Methyltransf_5; cl17771 204722007613 manganese transport protein MntH; Reviewed; Region: PRK00701 204722007614 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 204722007615 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 204722007616 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 204722007617 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204722007618 catalytic residue [active] 204722007619 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 204722007620 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 204722007621 amidase catalytic site [active] 204722007622 Zn binding residues [ion binding]; other site 204722007623 substrate binding site [chemical binding]; other site 204722007624 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 204722007625 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 204722007626 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 204722007627 putative metal binding site [ion binding]; other site 204722007628 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 204722007629 HSP70 interaction site [polypeptide binding]; other site 204722007630 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 204722007631 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 204722007632 active site 204722007633 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 204722007634 FAD binding site [chemical binding]; other site 204722007635 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 204722007636 dimerization interface [polypeptide binding]; other site 204722007637 putative DNA binding site [nucleotide binding]; other site 204722007638 putative Zn2+ binding site [ion binding]; other site 204722007639 Methyltransferase domain; Region: Methyltransf_31; pfam13847 204722007640 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 204722007641 S-adenosylmethionine binding site [chemical binding]; other site 204722007642 Uncharacterized conserved protein [Function unknown]; Region: COG5586 204722007643 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 204722007644 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722007645 putative substrate translocation pore; other site 204722007646 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 204722007647 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 204722007648 S-adenosylmethionine binding site [chemical binding]; other site 204722007649 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 204722007650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722007651 Walker A/P-loop; other site 204722007652 ATP binding site [chemical binding]; other site 204722007653 Q-loop/lid; other site 204722007654 ABC transporter signature motif; other site 204722007655 Walker B; other site 204722007656 D-loop; other site 204722007657 H-loop/switch region; other site 204722007658 ABC transporter; Region: ABC_tran_2; pfam12848 204722007659 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204722007660 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 204722007661 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 204722007662 PGAP1-like protein; Region: PGAP1; pfam07819 204722007663 Protein of unknown function (DUF1498); Region: DUF1498; pfam07385 204722007664 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 204722007665 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 204722007666 [2Fe-2S] cluster binding site [ion binding]; other site 204722007667 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 204722007668 putative alpha subunit interface [polypeptide binding]; other site 204722007669 putative active site [active] 204722007670 putative substrate binding site [chemical binding]; other site 204722007671 Fe binding site [ion binding]; other site 204722007672 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 204722007673 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 204722007674 FAD binding pocket [chemical binding]; other site 204722007675 FAD binding motif [chemical binding]; other site 204722007676 phosphate binding motif [ion binding]; other site 204722007677 beta-alpha-beta structure motif; other site 204722007678 NAD binding pocket [chemical binding]; other site 204722007679 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 204722007680 catalytic loop [active] 204722007681 iron binding site [ion binding]; other site 204722007682 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 204722007683 PhnA protein; Region: PhnA; pfam03831 204722007684 Isochorismatase family; Region: Isochorismatase; pfam00857 204722007685 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 204722007686 catalytic triad [active] 204722007687 metal binding site [ion binding]; metal-binding site 204722007688 conserved cis-peptide bond; other site 204722007689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 204722007690 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 204722007691 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 204722007692 active site 204722007693 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 204722007694 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 204722007695 active site 204722007696 catalytic residues [active] 204722007697 DNA binding site [nucleotide binding] 204722007698 Int/Topo IB signature motif; other site 204722007699 Uncharacterized conserved protein [Function unknown]; Region: COG2968 204722007700 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 204722007701 hypothetical protein; Provisional; Region: PRK05170 204722007702 Uncharacterized conserved protein [Function unknown]; Region: COG5453 204722007703 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 204722007704 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 204722007705 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 204722007706 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 204722007707 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204722007708 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 204722007709 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 204722007710 DNA binding residues [nucleotide binding] 204722007711 DNA primase; Validated; Region: dnaG; PRK05667 204722007712 CHC2 zinc finger; Region: zf-CHC2; pfam01807 204722007713 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 204722007714 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 204722007715 active site 204722007716 metal binding site [ion binding]; metal-binding site 204722007717 interdomain interaction site; other site 204722007718 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 204722007719 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 204722007720 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 204722007721 PhoU domain; Region: PhoU; pfam01895 204722007722 PhoU domain; Region: PhoU; pfam01895 204722007723 Uncharacterized conserved protein [Function unknown]; Region: COG1610 204722007724 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 204722007725 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 204722007726 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 204722007727 catalytic site [active] 204722007728 subunit interface [polypeptide binding]; other site 204722007729 Predicted metalloprotease [General function prediction only]; Region: COG2321 204722007730 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 204722007731 Predicted membrane protein [Function unknown]; Region: COG5395 204722007732 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 204722007733 LytTr DNA-binding domain; Region: LytTR; pfam04397 204722007734 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 204722007735 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 204722007736 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204722007737 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 204722007738 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 204722007739 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204722007740 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 204722007741 IMP binding site; other site 204722007742 dimer interface [polypeptide binding]; other site 204722007743 partial ornithine binding site; other site 204722007744 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 204722007745 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 204722007746 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 204722007747 NUDIX domain; Region: NUDIX; pfam00293 204722007748 nudix motif; other site 204722007749 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 204722007750 DNA-binding site [nucleotide binding]; DNA binding site 204722007751 RNA-binding motif; other site 204722007752 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 204722007753 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 204722007754 putative C-terminal domain interface [polypeptide binding]; other site 204722007755 putative GSH binding site (G-site) [chemical binding]; other site 204722007756 putative dimer interface [polypeptide binding]; other site 204722007757 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 204722007758 N-terminal domain interface [polypeptide binding]; other site 204722007759 dimer interface [polypeptide binding]; other site 204722007760 substrate binding pocket (H-site) [chemical binding]; other site 204722007761 aspartate aminotransferase; Provisional; Region: PRK05764 204722007762 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 204722007763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722007764 homodimer interface [polypeptide binding]; other site 204722007765 catalytic residue [active] 204722007766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204722007767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722007768 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 204722007769 putative effector binding pocket; other site 204722007770 dimerization interface [polypeptide binding]; other site 204722007771 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 204722007772 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204722007773 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 204722007774 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 204722007775 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204722007776 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 204722007777 putative DNA binding site [nucleotide binding]; other site 204722007778 putative Zn2+ binding site [ion binding]; other site 204722007779 AsnC family; Region: AsnC_trans_reg; pfam01037 204722007780 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 204722007781 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204722007782 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 204722007783 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 204722007784 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 204722007785 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 204722007786 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 204722007787 EamA-like transporter family; Region: EamA; pfam00892 204722007788 EamA-like transporter family; Region: EamA; pfam00892 204722007789 Protein of unknown function, DUF486; Region: DUF486; cl01236 204722007790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 204722007791 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 204722007792 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 204722007793 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 204722007794 Bacterial SH3 domain; Region: SH3_3; pfam08239 204722007795 excinuclease ABC subunit B; Provisional; Region: PRK05298 204722007796 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 204722007797 ATP binding site [chemical binding]; other site 204722007798 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 204722007799 nucleotide binding region [chemical binding]; other site 204722007800 ATP-binding site [chemical binding]; other site 204722007801 Ultra-violet resistance protein B; Region: UvrB; pfam12344 204722007802 UvrB/uvrC motif; Region: UVR; pfam02151 204722007803 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 204722007804 DNA-binding site [nucleotide binding]; DNA binding site 204722007805 RNA-binding motif; other site 204722007806 BA14K-like protein; Region: BA14K; pfam07886 204722007807 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 204722007808 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 204722007809 MarR family; Region: MarR_2; pfam12802 204722007810 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204722007811 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 204722007812 active site 204722007813 phosphorylation site [posttranslational modification] 204722007814 intermolecular recognition site; other site 204722007815 dimerization interface [polypeptide binding]; other site 204722007816 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 204722007817 DNA binding site [nucleotide binding] 204722007818 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 204722007819 dimer interface [polypeptide binding]; other site 204722007820 phosphorylation site [posttranslational modification] 204722007821 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 204722007822 ATP binding site [chemical binding]; other site 204722007823 Mg2+ binding site [ion binding]; other site 204722007824 G-X-G motif; other site 204722007825 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 204722007826 dimer interface [polypeptide binding]; other site 204722007827 putative tRNA-binding site [nucleotide binding]; other site 204722007828 Uncharacterized conserved protein [Function unknown]; Region: COG5465 204722007829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 204722007830 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 204722007831 Uncharacterized conserved protein [Function unknown]; Region: COG1565 204722007832 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 204722007833 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 204722007834 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 204722007835 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 204722007836 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 204722007837 active site 204722007838 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 204722007839 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 204722007840 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204722007841 active site 204722007842 HerA helicase [Replication, recombination, and repair]; Region: COG0433 204722007843 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 204722007844 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 204722007845 5S rRNA interface [nucleotide binding]; other site 204722007846 CTC domain interface [polypeptide binding]; other site 204722007847 L16 interface [polypeptide binding]; other site 204722007848 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 204722007849 putative active site [active] 204722007850 catalytic residue [active] 204722007851 GTP-binding protein YchF; Reviewed; Region: PRK09601 204722007852 YchF GTPase; Region: YchF; cd01900 204722007853 G1 box; other site 204722007854 GTP/Mg2+ binding site [chemical binding]; other site 204722007855 Switch I region; other site 204722007856 G2 box; other site 204722007857 Switch II region; other site 204722007858 G3 box; other site 204722007859 G4 box; other site 204722007860 G5 box; other site 204722007861 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 204722007862 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 204722007863 putative active site [active] 204722007864 putative catalytic site [active] 204722007865 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 204722007866 putative active site [active] 204722007867 putative catalytic site [active] 204722007868 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204722007869 active site 204722007870 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 204722007871 cytochrome b; Provisional; Region: CYTB; MTH00191 204722007872 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 204722007873 Qi binding site; other site 204722007874 intrachain domain interface; other site 204722007875 interchain domain interface [polypeptide binding]; other site 204722007876 heme bH binding site [chemical binding]; other site 204722007877 heme bL binding site [chemical binding]; other site 204722007878 Qo binding site; other site 204722007879 Cytochrome b(C-terminus)/b6/petD: 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_C; cd00290 204722007880 interchain domain interface [polypeptide binding]; other site 204722007881 intrachain domain interface; other site 204722007882 Qi binding site; other site 204722007883 Qo binding site; other site 204722007884 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 204722007885 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 204722007886 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 204722007887 [2Fe-2S] cluster binding site [ion binding]; other site 204722007888 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 204722007889 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 204722007890 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 204722007891 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722007892 Coenzyme A binding pocket [chemical binding]; other site 204722007893 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 204722007894 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 204722007895 active site 204722007896 NTP binding site [chemical binding]; other site 204722007897 metal binding triad [ion binding]; metal-binding site 204722007898 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 204722007899 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 204722007900 putative active site [active] 204722007901 putative CoA binding site [chemical binding]; other site 204722007902 nudix motif; other site 204722007903 metal binding site [ion binding]; metal-binding site 204722007904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 204722007905 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 204722007906 MoxR-like ATPases [General function prediction only]; Region: COG0714 204722007907 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 204722007908 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 204722007909 Protein of unknown function DUF58; Region: DUF58; pfam01882 204722007910 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 204722007911 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 204722007912 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 204722007913 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 204722007914 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 204722007915 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722007916 Coenzyme A binding pocket [chemical binding]; other site 204722007917 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 204722007918 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 204722007919 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 204722007920 putative dimer interface [polypeptide binding]; other site 204722007921 N-terminal domain interface [polypeptide binding]; other site 204722007922 putative substrate binding pocket (H-site) [chemical binding]; other site 204722007923 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 204722007924 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_21; cd04680 204722007925 nudix motif; other site 204722007926 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 204722007927 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 204722007928 active site 204722007929 metal binding site [ion binding]; metal-binding site 204722007930 2-isopropylmalate synthase; Validated; Region: PRK03739 204722007931 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 204722007932 active site 204722007933 catalytic residues [active] 204722007934 metal binding site [ion binding]; metal-binding site 204722007935 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 204722007936 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 204722007937 Cation efflux family; Region: Cation_efflux; pfam01545 204722007938 anthranilate synthase; Provisional; Region: PRK13566 204722007939 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 204722007940 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 204722007941 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 204722007942 glutamine binding [chemical binding]; other site 204722007943 catalytic triad [active] 204722007944 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 204722007945 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 204722007946 putative DNA binding site [nucleotide binding]; other site 204722007947 putative Zn2+ binding site [ion binding]; other site 204722007948 AsnC family; Region: AsnC_trans_reg; pfam01037 204722007949 Transcriptional regulators [Transcription]; Region: MarR; COG1846 204722007950 MarR family; Region: MarR_2; pfam12802 204722007951 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722007952 putative substrate translocation pore; other site 204722007953 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204722007954 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 204722007955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 204722007956 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 204722007957 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 204722007958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722007959 dimer interface [polypeptide binding]; other site 204722007960 conserved gate region; other site 204722007961 putative PBP binding loops; other site 204722007962 ABC-ATPase subunit interface; other site 204722007963 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 204722007964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722007965 Walker A/P-loop; other site 204722007966 ATP binding site [chemical binding]; other site 204722007967 Q-loop/lid; other site 204722007968 ABC transporter signature motif; other site 204722007969 Walker B; other site 204722007970 D-loop; other site 204722007971 H-loop/switch region; other site 204722007972 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722007973 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 204722007974 Walker A/P-loop; other site 204722007975 ATP binding site [chemical binding]; other site 204722007976 Q-loop/lid; other site 204722007977 ABC transporter signature motif; other site 204722007978 Walker B; other site 204722007979 D-loop; other site 204722007980 H-loop/switch region; other site 204722007981 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 204722007982 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 204722007983 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204722007984 Walker A/P-loop; other site 204722007985 ATP binding site [chemical binding]; other site 204722007986 Q-loop/lid; other site 204722007987 ABC transporter signature motif; other site 204722007988 Walker B; other site 204722007989 D-loop; other site 204722007990 H-loop/switch region; other site 204722007991 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 204722007992 dipeptide transporter; Provisional; Region: PRK10913 204722007993 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 204722007994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722007995 dimer interface [polypeptide binding]; other site 204722007996 conserved gate region; other site 204722007997 putative PBP binding loops; other site 204722007998 ABC-ATPase subunit interface; other site 204722007999 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 204722008000 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722008001 dimer interface [polypeptide binding]; other site 204722008002 conserved gate region; other site 204722008003 putative PBP binding loops; other site 204722008004 ABC-ATPase subunit interface; other site 204722008005 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 204722008006 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 204722008007 dimerization interface [polypeptide binding]; other site 204722008008 putative DNA binding site [nucleotide binding]; other site 204722008009 putative Zn2+ binding site [ion binding]; other site 204722008010 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 204722008011 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 204722008012 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 204722008013 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 204722008014 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 204722008015 Ligand Binding Site [chemical binding]; other site 204722008016 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 204722008017 Predicted acetyltransferase [General function prediction only]; Region: COG2388 204722008018 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 204722008019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 204722008020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 204722008021 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204722008022 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 204722008023 active site 204722008024 phosphorylation site [posttranslational modification] 204722008025 intermolecular recognition site; other site 204722008026 dimerization interface [polypeptide binding]; other site 204722008027 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 204722008028 DNA binding site [nucleotide binding] 204722008029 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 204722008030 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 204722008031 inhibitor-cofactor binding pocket; inhibition site 204722008032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722008033 catalytic residue [active] 204722008034 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722008035 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722008036 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 204722008037 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 204722008038 PAS domain; Region: PAS_8; pfam13188 204722008039 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 204722008040 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 204722008041 putative active site [active] 204722008042 heme pocket [chemical binding]; other site 204722008043 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 204722008044 dimer interface [polypeptide binding]; other site 204722008045 phosphorylation site [posttranslational modification] 204722008046 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 204722008047 ATP binding site [chemical binding]; other site 204722008048 Mg2+ binding site [ion binding]; other site 204722008049 G-X-G motif; other site 204722008050 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 204722008051 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 204722008052 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 204722008053 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722008054 dimer interface [polypeptide binding]; other site 204722008055 conserved gate region; other site 204722008056 putative PBP binding loops; other site 204722008057 ABC-ATPase subunit interface; other site 204722008058 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722008059 dimer interface [polypeptide binding]; other site 204722008060 conserved gate region; other site 204722008061 putative PBP binding loops; other site 204722008062 ABC-ATPase subunit interface; other site 204722008063 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 204722008064 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 204722008065 Walker A/P-loop; other site 204722008066 ATP binding site [chemical binding]; other site 204722008067 Q-loop/lid; other site 204722008068 ABC transporter signature motif; other site 204722008069 Walker B; other site 204722008070 D-loop; other site 204722008071 H-loop/switch region; other site 204722008072 TOBE domain; Region: TOBE_2; pfam08402 204722008073 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 204722008074 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 204722008075 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 204722008076 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 204722008077 non-specific DNA binding site [nucleotide binding]; other site 204722008078 salt bridge; other site 204722008079 sequence-specific DNA binding site [nucleotide binding]; other site 204722008080 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 204722008081 Domain of unknown function (DUF955); Region: DUF955; pfam06114 204722008082 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 204722008083 isocitrate lyase; Provisional; Region: PRK15063 204722008084 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 204722008085 tetramer interface [polypeptide binding]; other site 204722008086 active site 204722008087 Mg2+/Mn2+ binding site [ion binding]; other site 204722008088 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 204722008089 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 204722008090 NAD binding site [chemical binding]; other site 204722008091 substrate binding site [chemical binding]; other site 204722008092 homotetramer interface [polypeptide binding]; other site 204722008093 homodimer interface [polypeptide binding]; other site 204722008094 active site 204722008095 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 204722008096 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 204722008097 NAD binding site [chemical binding]; other site 204722008098 substrate binding site [chemical binding]; other site 204722008099 homotetramer interface [polypeptide binding]; other site 204722008100 homodimer interface [polypeptide binding]; other site 204722008101 active site 204722008102 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 204722008103 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 204722008104 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204722008105 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 204722008106 active site 204722008107 nucleophile elbow; other site 204722008108 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 204722008109 short chain dehydrogenase; Provisional; Region: PRK06841 204722008110 classical (c) SDRs; Region: SDR_c; cd05233 204722008111 NAD(P) binding site [chemical binding]; other site 204722008112 active site 204722008113 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 204722008114 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 204722008115 putative ligand binding site [chemical binding]; other site 204722008116 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722008117 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 204722008118 TM-ABC transporter signature motif; other site 204722008119 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 204722008120 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 204722008121 Walker A/P-loop; other site 204722008122 ATP binding site [chemical binding]; other site 204722008123 Q-loop/lid; other site 204722008124 ABC transporter signature motif; other site 204722008125 Walker B; other site 204722008126 D-loop; other site 204722008127 H-loop/switch region; other site 204722008128 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 204722008129 Uncharacterized conserved protein [Function unknown]; Region: COG5591 204722008130 Transcriptional regulator [Transcription]; Region: IclR; COG1414 204722008131 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 204722008132 Bacterial transcriptional regulator; Region: IclR; pfam01614 204722008133 succinic semialdehyde dehydrogenase; Region: PLN02278 204722008134 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 204722008135 tetramerization interface [polypeptide binding]; other site 204722008136 NAD(P) binding site [chemical binding]; other site 204722008137 catalytic residues [active] 204722008138 Predicted membrane protein [Function unknown]; Region: COG1238 204722008139 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 204722008140 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 204722008141 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 204722008142 active site 204722008143 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 204722008144 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 204722008145 helix-hairpin-helix signature motif; other site 204722008146 substrate binding pocket [chemical binding]; other site 204722008147 active site 204722008148 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 204722008149 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 204722008150 active site 204722008151 HIGH motif; other site 204722008152 nucleotide binding site [chemical binding]; other site 204722008153 active site 204722008154 KMSKS motif; other site 204722008155 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, 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...; Region: malate_synt_G; cd00728 204722008156 active site 204722008157 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 204722008158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722008159 Coenzyme A binding pocket [chemical binding]; other site 204722008160 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 204722008161 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 204722008162 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204722008163 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 204722008164 DNA binding residues [nucleotide binding] 204722008165 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 204722008166 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 204722008167 RNA binding surface [nucleotide binding]; other site 204722008168 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 204722008169 active site 204722008170 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 204722008171 metal binding site 2 [ion binding]; metal-binding site 204722008172 putative DNA binding helix; other site 204722008173 metal binding site 1 [ion binding]; metal-binding site 204722008174 dimer interface [polypeptide binding]; other site 204722008175 structural Zn2+ binding site [ion binding]; other site 204722008176 PAS fold; Region: PAS_4; pfam08448 204722008177 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 204722008178 HWE histidine kinase; Region: HWE_HK; pfam07536 204722008179 two-component response regulator; Provisional; Region: PRK09191 204722008180 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 204722008181 active site 204722008182 phosphorylation site [posttranslational modification] 204722008183 intermolecular recognition site; other site 204722008184 dimerization interface [polypeptide binding]; other site 204722008185 RNA polymerase sigma factor; Provisional; Region: PRK12516 204722008186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204722008187 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 204722008188 DNA binding residues [nucleotide binding] 204722008189 CHASE3 domain; Region: CHASE3; pfam05227 204722008190 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 204722008191 Histidine kinase; Region: HisKA_2; pfam07568 204722008192 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 204722008193 ATP binding site [chemical binding]; other site 204722008194 Mg2+ binding site [ion binding]; other site 204722008195 G-X-G motif; other site 204722008196 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 204722008197 PRC-barrel domain; Region: PRC; pfam05239 204722008198 PRC-barrel domain; Region: PRC; pfam05239 204722008199 tonB-system energizer ExbB; Region: exbB; TIGR02797 204722008200 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 204722008201 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 204722008202 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 204722008203 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 204722008204 Predicted periplasmic protein [Function unknown]; Region: COG3698 204722008205 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 204722008206 macrolide transporter subunit MacA; Provisional; Region: PRK11578 204722008207 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204722008208 HlyD family secretion protein; Region: HlyD_3; pfam13437 204722008209 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 204722008210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 204722008211 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 204722008212 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 204722008213 trimer interface [polypeptide binding]; other site 204722008214 active site 204722008215 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204722008216 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 204722008217 dimerization interface [polypeptide binding]; other site 204722008218 putative DNA binding site [nucleotide binding]; other site 204722008219 putative Zn2+ binding site [ion binding]; other site 204722008220 AsnC family; Region: AsnC_trans_reg; pfam01037 204722008221 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 204722008222 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 204722008223 putative active site [active] 204722008224 putative dimer interface [polypeptide binding]; other site 204722008225 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 204722008226 diiron binding motif [ion binding]; other site 204722008227 Uncharacterized conserved protein [Function unknown]; Region: COG1633 204722008228 CCC1-related protein family; Region: CCC1_like_1; cd02437 204722008229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722008230 metabolite-proton symporter; Region: 2A0106; TIGR00883 204722008231 putative substrate translocation pore; other site 204722008232 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 204722008233 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 204722008234 GDP-binding site [chemical binding]; other site 204722008235 ACT binding site; other site 204722008236 IMP binding site; other site 204722008237 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 204722008238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722008239 Coenzyme A binding pocket [chemical binding]; other site 204722008240 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 204722008241 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 204722008242 ligand binding site [chemical binding]; other site 204722008243 NAD binding site [chemical binding]; other site 204722008244 dimerization interface [polypeptide binding]; other site 204722008245 catalytic site [active] 204722008246 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 204722008247 putative L-serine binding site [chemical binding]; other site 204722008248 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; cd01494 204722008249 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204722008250 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 204722008251 catalytic residue [active] 204722008252 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 204722008253 Sodium Bile acid symporter family; Region: SBF; pfam01758 204722008254 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204722008255 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 204722008256 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 204722008257 active site 204722008258 substrate binding site [chemical binding]; other site 204722008259 metal binding site [ion binding]; metal-binding site 204722008260 FtsH Extracellular; Region: FtsH_ext; pfam06480 204722008261 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 204722008262 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 204722008263 Walker A motif; other site 204722008264 ATP binding site [chemical binding]; other site 204722008265 Walker B motif; other site 204722008266 arginine finger; other site 204722008267 Peptidase family M41; Region: Peptidase_M41; pfam01434 204722008268 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 204722008269 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 204722008270 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 204722008271 Tetratricopeptide repeat; Region: TPR_6; pfam13174 204722008272 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 204722008273 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204722008274 ligand binding site [chemical binding]; other site 204722008275 translocation protein TolB; Provisional; Region: tolB; PRK05137 204722008276 TolB amino-terminal domain; Region: TolB_N; pfam04052 204722008277 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 204722008278 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 204722008279 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 204722008280 TolR protein; Region: tolR; TIGR02801 204722008281 TolQ protein; Region: tolQ; TIGR02796 204722008282 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 204722008283 active site 204722008284 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 204722008285 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 204722008286 Walker A motif; other site 204722008287 ATP binding site [chemical binding]; other site 204722008288 Walker B motif; other site 204722008289 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 204722008290 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 204722008291 RuvA N terminal domain; Region: RuvA_N; pfam01330 204722008292 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 204722008293 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 204722008294 active site 204722008295 putative DNA-binding cleft [nucleotide binding]; other site 204722008296 dimer interface [polypeptide binding]; other site 204722008297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 204722008298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4645 204722008299 Acyltransferase family; Region: Acyl_transf_3; pfam01757 204722008300 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 204722008301 active site 204722008302 thiamine phosphate binding site [chemical binding]; other site 204722008303 pyrophosphate binding site [ion binding]; other site 204722008304 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 204722008305 Sel1-like repeats; Region: SEL1; smart00671 204722008306 Sel1-like repeats; Region: SEL1; smart00671 204722008307 elongation factor P; Validated; Region: PRK00529 204722008308 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 204722008309 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 204722008310 RNA binding site [nucleotide binding]; other site 204722008311 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 204722008312 RNA binding site [nucleotide binding]; other site 204722008313 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 204722008314 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 204722008315 active site 204722008316 dimerization interface [polypeptide binding]; other site 204722008317 hypothetical protein; Validated; Region: PRK09039 204722008318 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204722008319 ligand binding site [chemical binding]; other site 204722008320 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 204722008321 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204722008322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204722008323 Walker A/P-loop; other site 204722008324 ATP binding site [chemical binding]; other site 204722008325 Q-loop/lid; other site 204722008326 ABC transporter signature motif; other site 204722008327 Walker B; other site 204722008328 D-loop; other site 204722008329 H-loop/switch region; other site 204722008330 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 204722008331 hypothetical protein; Validated; Region: PRK00110 204722008332 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 204722008333 Uncharacterized conserved protein [Function unknown]; Region: COG3543 204722008334 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 204722008335 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 204722008336 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 204722008337 putative active site [active] 204722008338 metal binding site [ion binding]; metal-binding site 204722008339 homodimer binding site [polypeptide binding]; other site 204722008340 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 204722008341 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 204722008342 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 204722008343 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 204722008344 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 204722008345 TPP-binding site [chemical binding]; other site 204722008346 dimer interface [polypeptide binding]; other site 204722008347 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 204722008348 PYR/PP interface [polypeptide binding]; other site 204722008349 dimer interface [polypeptide binding]; other site 204722008350 TPP binding site [chemical binding]; other site 204722008351 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 204722008352 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 204722008353 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 204722008354 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 204722008355 Phosphoglycerate kinase; Region: PGK; pfam00162 204722008356 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 204722008357 substrate binding site [chemical binding]; other site 204722008358 hinge regions; other site 204722008359 ADP binding site [chemical binding]; other site 204722008360 catalytic site [active] 204722008361 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 204722008362 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 204722008363 acyl-activating enzyme (AAE) consensus motif; other site 204722008364 putative AMP binding site [chemical binding]; other site 204722008365 putative active site [active] 204722008366 putative CoA binding site [chemical binding]; other site 204722008367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204722008368 Predicted transcriptional regulator [Transcription]; Region: COG2378 204722008369 HTH domain; Region: HTH_11; pfam08279 204722008370 WYL domain; Region: WYL; pfam13280 204722008371 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 204722008372 CoenzymeA binding site [chemical binding]; other site 204722008373 subunit interaction site [polypeptide binding]; other site 204722008374 PHB binding site; other site 204722008375 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 204722008376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 204722008377 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 204722008378 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 204722008379 NAD(P) binding site [chemical binding]; other site 204722008380 Uncharacterized small protein containing a coiled-coil domain [Function unknown]; Region: COG5509 204722008381 putative MFS family transporter protein; Provisional; Region: PRK03633 204722008382 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722008383 putative substrate translocation pore; other site 204722008384 Uncharacterized small protein [Function unknown]; Region: COG5570 204722008385 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 204722008386 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 204722008387 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 204722008388 ATP-grasp domain; Region: ATP-grasp; pfam02222 204722008389 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 204722008390 TPR repeat; Region: TPR_11; pfam13414 204722008391 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 204722008392 TPR motif; other site 204722008393 binding surface 204722008394 pyruvate kinase; Provisional; Region: PRK06247 204722008395 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 204722008396 domain interfaces; other site 204722008397 active site 204722008398 Predicted integral membrane protein [Function unknown]; Region: COG5480 204722008399 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 204722008400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 204722008401 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 204722008402 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204722008403 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204722008404 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 204722008405 Thiamine pyrophosphokinase; Region: TPK; cd07995 204722008406 active site 204722008407 dimerization interface [polypeptide binding]; other site 204722008408 thiamine binding site [chemical binding]; other site 204722008409 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 204722008410 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 204722008411 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 204722008412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722008413 dimer interface [polypeptide binding]; other site 204722008414 conserved gate region; other site 204722008415 putative PBP binding loops; other site 204722008416 ABC-ATPase subunit interface; other site 204722008417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722008418 dimer interface [polypeptide binding]; other site 204722008419 conserved gate region; other site 204722008420 putative PBP binding loops; other site 204722008421 ABC-ATPase subunit interface; other site 204722008422 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 204722008423 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 204722008424 Walker A/P-loop; other site 204722008425 ATP binding site [chemical binding]; other site 204722008426 Q-loop/lid; other site 204722008427 ABC transporter signature motif; other site 204722008428 Walker B; other site 204722008429 D-loop; other site 204722008430 H-loop/switch region; other site 204722008431 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 204722008432 Peptidase family M48; Region: Peptidase_M48; pfam01435 204722008433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 204722008434 MOSC domain; Region: MOSC; pfam03473 204722008435 3-alpha domain; Region: 3-alpha; pfam03475 204722008436 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 204722008437 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204722008438 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 204722008439 DNA binding residues [nucleotide binding] 204722008440 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 204722008441 Ferredoxin [Energy production and conversion]; Region: COG1146 204722008442 4Fe-4S binding domain; Region: Fer4; pfam00037 204722008443 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 204722008444 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 204722008445 RNA binding surface [nucleotide binding]; other site 204722008446 putative acyltransferase; Provisional; Region: PRK05790 204722008447 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 204722008448 dimer interface [polypeptide binding]; other site 204722008449 active site 204722008450 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 204722008451 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 204722008452 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 204722008453 Transglycosylase; Region: Transgly; pfam00912 204722008454 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 204722008455 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 204722008456 substrate binding pocket [chemical binding]; other site 204722008457 chain length determination region; other site 204722008458 substrate-Mg2+ binding site; other site 204722008459 catalytic residues [active] 204722008460 aspartate-rich region 1; other site 204722008461 active site lid residues [active] 204722008462 aspartate-rich region 2; other site 204722008463 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 204722008464 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 204722008465 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 204722008466 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 204722008467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204722008468 NAD(P) binding site [chemical binding]; other site 204722008469 active site 204722008470 pyruvate carboxylase; Reviewed; Region: PRK12999 204722008471 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 204722008472 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204722008473 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 204722008474 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 204722008475 active site 204722008476 catalytic residues [active] 204722008477 metal binding site [ion binding]; metal-binding site 204722008478 homodimer binding site [polypeptide binding]; other site 204722008479 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 204722008480 carboxyltransferase (CT) interaction site; other site 204722008481 biotinylation site [posttranslational modification]; other site 204722008482 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204722008483 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 204722008484 dimerization interface [polypeptide binding]; other site 204722008485 ligand binding site [chemical binding]; other site 204722008486 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204722008487 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 204722008488 dimerization interface [polypeptide binding]; other site 204722008489 ligand binding site [chemical binding]; other site 204722008490 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204722008491 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204722008492 Walker A/P-loop; other site 204722008493 ATP binding site [chemical binding]; other site 204722008494 Q-loop/lid; other site 204722008495 ABC transporter signature motif; other site 204722008496 Walker B; other site 204722008497 D-loop; other site 204722008498 H-loop/switch region; other site 204722008499 Uncharacterized conserved protein [Function unknown]; Region: COG3743 204722008500 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 204722008501 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 204722008502 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 204722008503 TM-ABC transporter signature motif; other site 204722008504 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722008505 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 204722008506 TM-ABC transporter signature motif; other site 204722008507 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 204722008508 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 204722008509 Transcriptional regulators [Transcription]; Region: FadR; COG2186 204722008510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722008511 DNA-binding site [nucleotide binding]; DNA binding site 204722008512 FCD domain; Region: FCD; pfam07729 204722008513 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 204722008514 MarR family; Region: MarR; pfam01047 204722008515 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 204722008516 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 204722008517 gamma subunit interface [polypeptide binding]; other site 204722008518 epsilon subunit interface [polypeptide binding]; other site 204722008519 LBP interface [polypeptide binding]; other site 204722008520 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 204722008521 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 204722008522 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 204722008523 alpha subunit interaction interface [polypeptide binding]; other site 204722008524 Walker A motif; other site 204722008525 ATP binding site [chemical binding]; other site 204722008526 Walker B motif; other site 204722008527 inhibitor binding site; inhibition site 204722008528 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 204722008529 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 204722008530 core domain interface [polypeptide binding]; other site 204722008531 delta subunit interface [polypeptide binding]; other site 204722008532 epsilon subunit interface [polypeptide binding]; other site 204722008533 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 204722008534 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 204722008535 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 204722008536 beta subunit interaction interface [polypeptide binding]; other site 204722008537 Walker A motif; other site 204722008538 ATP binding site [chemical binding]; other site 204722008539 Walker B motif; other site 204722008540 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 204722008541 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 204722008542 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 204722008543 primosome assembly protein PriA; Validated; Region: PRK05580 204722008544 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 204722008545 ATP binding site [chemical binding]; other site 204722008546 putative Mg++ binding site [ion binding]; other site 204722008547 helicase superfamily c-terminal domain; Region: HELICc; smart00490 204722008548 nucleotide binding region [chemical binding]; other site 204722008549 ATP-binding site [chemical binding]; other site 204722008550 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 204722008551 active site 204722008552 intersubunit interactions; other site 204722008553 catalytic residue [active] 204722008554 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 204722008555 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 204722008556 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 204722008557 HIGH motif; other site 204722008558 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 204722008559 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204722008560 active site 204722008561 KMSKS motif; other site 204722008562 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 204722008563 tRNA binding surface [nucleotide binding]; other site 204722008564 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 204722008565 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204722008566 catalytic residue [active] 204722008567 Predicted membrane protein [Function unknown]; Region: COG1289 204722008568 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 204722008569 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 204722008570 acetyl-CoA synthetase; Provisional; Region: PRK00174 204722008571 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 204722008572 active site 204722008573 CoA binding site [chemical binding]; other site 204722008574 acyl-activating enzyme (AAE) consensus motif; other site 204722008575 AMP binding site [chemical binding]; other site 204722008576 acetate binding site [chemical binding]; other site 204722008577 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 204722008578 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 204722008579 heat shock protein HtpX; Provisional; Region: PRK01345 204722008580 NusB family; Region: NusB; pfam01029 204722008581 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 204722008582 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 204722008583 S-adenosylmethionine binding site [chemical binding]; other site 204722008584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 204722008585 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 204722008586 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 204722008587 purine monophosphate binding site [chemical binding]; other site 204722008588 dimer interface [polypeptide binding]; other site 204722008589 putative catalytic residues [active] 204722008590 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 204722008591 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 204722008592 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 204722008593 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 204722008594 Predicted membrane protein [Function unknown]; Region: COG3762 204722008595 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 204722008596 Repair protein; Region: Repair_PSII; pfam04536 204722008597 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 204722008598 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 204722008599 chorismate mutase; Provisional; Region: PRK09239 204722008600 signal recognition particle protein; Provisional; Region: PRK10867 204722008601 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 204722008602 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 204722008603 P loop; other site 204722008604 GTP binding site [chemical binding]; other site 204722008605 Signal peptide binding domain; Region: SRP_SPB; pfam02978 204722008606 lytic murein transglycosylase; Region: MltB_2; TIGR02283 204722008607 murein hydrolase B; Provisional; Region: PRK10760; cl17906 204722008608 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 204722008609 active site clefts [active] 204722008610 zinc binding site [ion binding]; other site 204722008611 dimer interface [polypeptide binding]; other site 204722008612 pyridoxamine kinase; Validated; Region: PRK05756 204722008613 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 204722008614 dimer interface [polypeptide binding]; other site 204722008615 pyridoxal binding site [chemical binding]; other site 204722008616 ATP binding site [chemical binding]; other site 204722008617 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 204722008618 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 204722008619 tetrameric interface [polypeptide binding]; other site 204722008620 NAD binding site [chemical binding]; other site 204722008621 catalytic residues [active] 204722008622 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204722008623 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722008624 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 204722008625 putative effector binding pocket; other site 204722008626 dimerization interface [polypeptide binding]; other site 204722008627 Predicted membrane protein [Function unknown]; Region: COG3619 204722008628 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 204722008629 putative active site [active] 204722008630 Ap4A binding site [chemical binding]; other site 204722008631 nudix motif; other site 204722008632 putative metal binding site [ion binding]; other site 204722008633 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 204722008634 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 204722008635 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 204722008636 protein binding site [polypeptide binding]; other site 204722008637 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 204722008638 Catalytic dyad [active] 204722008639 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 204722008640 Peptidase family M23; Region: Peptidase_M23; pfam01551 204722008641 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 204722008642 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 204722008643 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 204722008644 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 204722008645 active site 204722008646 (T/H)XGH motif; other site 204722008647 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 204722008648 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 204722008649 putative catalytic cysteine [active] 204722008650 gamma-glutamyl kinase; Provisional; Region: PRK05429 204722008651 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 204722008652 nucleotide binding site [chemical binding]; other site 204722008653 homotetrameric interface [polypeptide binding]; other site 204722008654 putative phosphate binding site [ion binding]; other site 204722008655 putative allosteric binding site; other site 204722008656 PUA domain; Region: PUA; pfam01472 204722008657 GTPase CgtA; Reviewed; Region: obgE; PRK12299 204722008658 GTP1/OBG; Region: GTP1_OBG; pfam01018 204722008659 Obg GTPase; Region: Obg; cd01898 204722008660 G1 box; other site 204722008661 GTP/Mg2+ binding site [chemical binding]; other site 204722008662 Switch I region; other site 204722008663 G2 box; other site 204722008664 G3 box; other site 204722008665 Switch II region; other site 204722008666 G4 box; other site 204722008667 G5 box; other site 204722008668 YadA-like C-terminal region; Region: YadA; pfam03895 204722008669 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 204722008670 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 204722008671 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 204722008672 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 204722008673 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 204722008674 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 204722008675 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 204722008676 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 204722008677 Integrase core domain; Region: rve; pfam00665 204722008678 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 204722008679 non-specific DNA binding site [nucleotide binding]; other site 204722008680 salt bridge; other site 204722008681 sequence-specific DNA binding site [nucleotide binding]; other site 204722008682 Cupin domain; Region: Cupin_2; cl17218 204722008683 Methyltransferase domain; Region: Methyltransf_31; pfam13847 204722008684 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 204722008685 S-adenosylmethionine binding site [chemical binding]; other site 204722008686 AzlC protein; Region: AzlC; pfam03591 204722008687 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 204722008688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 204722008689 Integrase core domain; Region: rve; pfam00665 204722008690 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 204722008691 Peptidase family M23; Region: Peptidase_M23; pfam01551 204722008692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 204722008693 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 204722008694 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 204722008695 Clp amino terminal domain; Region: Clp_N; pfam02861 204722008696 Clp amino terminal domain; Region: Clp_N; pfam02861 204722008697 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 204722008698 Walker A motif; other site 204722008699 ATP binding site [chemical binding]; other site 204722008700 Walker B motif; other site 204722008701 arginine finger; other site 204722008702 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 204722008703 Walker A motif; other site 204722008704 ATP binding site [chemical binding]; other site 204722008705 Walker B motif; other site 204722008706 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 204722008707 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 204722008708 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 204722008709 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 204722008710 S-adenosylmethionine binding site [chemical binding]; other site 204722008711 peptide chain release factor 1; Validated; Region: prfA; PRK00591 204722008712 This domain is found in peptide chain release factors; Region: PCRF; smart00937 204722008713 RF-1 domain; Region: RF-1; pfam00472 204722008714 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 204722008715 GAF domain; Region: GAF; pfam01590 204722008716 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 204722008717 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 204722008718 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 204722008719 aspartate kinase; Reviewed; Region: PRK06635 204722008720 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 204722008721 putative nucleotide binding site [chemical binding]; other site 204722008722 putative catalytic residues [active] 204722008723 putative Mg ion binding site [ion binding]; other site 204722008724 putative aspartate binding site [chemical binding]; other site 204722008725 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 204722008726 putative allosteric regulatory site; other site 204722008727 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 204722008728 putative allosteric regulatory residue; other site 204722008729 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 204722008730 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 204722008731 S-adenosylmethionine binding site [chemical binding]; other site 204722008732 EamA-like transporter family; Region: EamA; pfam00892 204722008733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 204722008734 Predicted amidohydrolase [General function prediction only]; Region: COG0388 204722008735 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 204722008736 putative active site [active] 204722008737 catalytic triad [active] 204722008738 dimer interface [polypeptide binding]; other site 204722008739 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 204722008740 GSH binding site [chemical binding]; other site 204722008741 catalytic residues [active] 204722008742 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 204722008743 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204722008744 active site 204722008745 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 204722008746 Methyltransferase domain; Region: Methyltransf_11; pfam08241 204722008747 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 204722008748 putative metal binding site [ion binding]; other site 204722008749 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 204722008750 HemY protein N-terminus; Region: HemY_N; pfam07219 204722008751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 204722008752 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 204722008753 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 204722008754 active site 204722008755 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 204722008756 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 204722008757 domain interfaces; other site 204722008758 active site 204722008759 UGMP family protein; Validated; Region: PRK09604 204722008760 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 204722008761 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 204722008762 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 204722008763 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 204722008764 YCII-related domain; Region: YCII; cl00999 204722008765 Uncharacterized conserved protein [Function unknown]; Region: COG2947 204722008766 Predicted methyltransferase [General function prediction only]; Region: COG3897 204722008767 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 204722008768 S-adenosylmethionine binding site [chemical binding]; other site 204722008769 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 204722008770 EamA-like transporter family; Region: EamA; pfam00892 204722008771 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 204722008772 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 204722008773 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 204722008774 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 204722008775 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 204722008776 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 204722008777 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 204722008778 active site 204722008779 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 204722008780 catalytic triad [active] 204722008781 dimer interface [polypeptide binding]; other site 204722008782 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 204722008783 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 204722008784 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 204722008785 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204722008786 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 204722008787 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 204722008788 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 204722008789 L-aspartate oxidase; Provisional; Region: PRK06175 204722008790 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 204722008791 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 204722008792 putative SdhC subunit interface [polypeptide binding]; other site 204722008793 putative proximal heme binding site [chemical binding]; other site 204722008794 putative Iron-sulfur protein interface [polypeptide binding]; other site 204722008795 putative proximal quinone binding site; other site 204722008796 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 204722008797 Iron-sulfur protein interface; other site 204722008798 proximal quinone binding site [chemical binding]; other site 204722008799 SdhD (CybS) interface [polypeptide binding]; other site 204722008800 proximal heme binding site [chemical binding]; other site 204722008801 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 204722008802 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722008803 Coenzyme A binding pocket [chemical binding]; other site 204722008804 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 204722008805 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 204722008806 substrate binding site [chemical binding]; other site 204722008807 ligand binding site [chemical binding]; other site 204722008808 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 204722008809 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 204722008810 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 204722008811 Na binding site [ion binding]; other site 204722008812 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 204722008813 NIPSNAP; Region: NIPSNAP; pfam07978 204722008814 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 204722008815 dimerization interface [polypeptide binding]; other site 204722008816 putative DNA binding site [nucleotide binding]; other site 204722008817 putative Zn2+ binding site [ion binding]; other site 204722008818 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 204722008819 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 204722008820 RimM N-terminal domain; Region: RimM; pfam01782 204722008821 PRC-barrel domain; Region: PRC; pfam05239 204722008822 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 204722008823 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 204722008824 active site 204722008825 DNA binding site [nucleotide binding] 204722008826 Int/Topo IB signature motif; other site 204722008827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 204722008828 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 204722008829 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204722008830 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204722008831 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 204722008832 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 204722008833 Predicted membrane protein [Function unknown]; Region: COG3686 204722008834 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 204722008835 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 204722008836 E3 interaction surface; other site 204722008837 lipoyl attachment site [posttranslational modification]; other site 204722008838 e3 binding domain; Region: E3_binding; pfam02817 204722008839 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 204722008840 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 204722008841 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 204722008842 TPP-binding site [chemical binding]; other site 204722008843 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 204722008844 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 204722008845 CoA binding domain; Region: CoA_binding; smart00881 204722008846 CoA-ligase; Region: Ligase_CoA; pfam00549 204722008847 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 204722008848 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 204722008849 CoA-ligase; Region: Ligase_CoA; pfam00549 204722008850 malate dehydrogenase; Reviewed; Region: PRK06223 204722008851 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 204722008852 NAD(P) binding site [chemical binding]; other site 204722008853 dimer interface [polypeptide binding]; other site 204722008854 tetramer (dimer of dimers) interface [polypeptide binding]; other site 204722008855 substrate binding site [chemical binding]; other site 204722008856 Predicted ATPase [General function prediction only]; Region: COG1485 204722008857 Protease inhibitor Inh; Region: Inh; pfam02974 204722008858 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 204722008859 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 204722008860 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 204722008861 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 204722008862 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 204722008863 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 204722008864 FeS/SAM binding site; other site 204722008865 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 204722008866 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 204722008867 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 204722008868 intracellular septation protein A; Reviewed; Region: PRK00259 204722008869 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 204722008870 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 204722008871 active site 204722008872 8-oxo-dGMP binding site [chemical binding]; other site 204722008873 nudix motif; other site 204722008874 metal binding site [ion binding]; metal-binding site 204722008875 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722008876 Coenzyme A binding pocket [chemical binding]; other site 204722008877 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 204722008878 heterotetramer interface [polypeptide binding]; other site 204722008879 active site pocket [active] 204722008880 cleavage site 204722008881 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 204722008882 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 204722008883 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 204722008884 DEAD/DEAH box helicase; Region: DEAD; pfam00270 204722008885 ATP binding site [chemical binding]; other site 204722008886 putative Mg++ binding site [ion binding]; other site 204722008887 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 204722008888 SEC-C motif; Region: SEC-C; pfam02810 204722008889 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 204722008890 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 204722008891 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 204722008892 Sulfatase; Region: Sulfatase; pfam00884 204722008893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204722008894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204722008895 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 204722008896 dimerization interface [polypeptide binding]; other site 204722008897 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 204722008898 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 204722008899 substrate binding pocket [chemical binding]; other site 204722008900 membrane-bound complex binding site; other site 204722008901 hinge residues; other site 204722008902 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 204722008903 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722008904 dimer interface [polypeptide binding]; other site 204722008905 conserved gate region; other site 204722008906 putative PBP binding loops; other site 204722008907 ABC-ATPase subunit interface; other site 204722008908 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 204722008909 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 204722008910 Walker A/P-loop; other site 204722008911 ATP binding site [chemical binding]; other site 204722008912 Q-loop/lid; other site 204722008913 ABC transporter signature motif; other site 204722008914 Walker B; other site 204722008915 D-loop; other site 204722008916 H-loop/switch region; other site 204722008917 agmatinase; Region: agmatinase; TIGR01230 204722008918 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 204722008919 oligomer interface [polypeptide binding]; other site 204722008920 active site 204722008921 Mn binding site [ion binding]; other site 204722008922 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 204722008923 Aspartase; Region: Aspartase; cd01357 204722008924 active sites [active] 204722008925 tetramer interface [polypeptide binding]; other site 204722008926 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 204722008927 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 204722008928 Walker A/P-loop; other site 204722008929 ATP binding site [chemical binding]; other site 204722008930 Q-loop/lid; other site 204722008931 ABC transporter signature motif; other site 204722008932 Walker B; other site 204722008933 D-loop; other site 204722008934 H-loop/switch region; other site 204722008935 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 204722008936 active site 204722008937 homotetramer interface [polypeptide binding]; other site 204722008938 homodimer interface [polypeptide binding]; other site 204722008939 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204722008940 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204722008941 DNA-binding site [nucleotide binding]; DNA binding site 204722008942 FCD domain; Region: FCD; pfam07729 204722008943 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 204722008944 active site 204722008945 homotetramer interface [polypeptide binding]; other site 204722008946 homodimer interface [polypeptide binding]; other site 204722008947 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 204722008948 D-galactonate transporter; Region: 2A0114; TIGR00893 204722008949 putative substrate translocation pore; other site 204722008950 methionine gamma-lyase; Validated; Region: PRK07049 204722008951 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 204722008952 homodimer interface [polypeptide binding]; other site 204722008953 substrate-cofactor binding pocket; other site 204722008954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722008955 catalytic residue [active] 204722008956 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 204722008957 Ligand Binding Site [chemical binding]; other site 204722008958 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 204722008959 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 204722008960 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 204722008961 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 204722008962 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 204722008963 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 204722008964 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 204722008965 Ligand binding site [chemical binding]; other site 204722008966 Electron transfer flavoprotein domain; Region: ETF; pfam01012 204722008967 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 204722008968 Ligand Binding Site [chemical binding]; other site 204722008969 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 204722008970 active site 204722008971 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 204722008972 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 204722008973 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 204722008974 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 204722008975 short chain dehydrogenase; Provisional; Region: PRK05993 204722008976 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 204722008977 NADP binding site [chemical binding]; other site 204722008978 active site 204722008979 steroid binding site; other site 204722008980 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 204722008981 hypothetical protein; Validated; Region: PRK00124 204722008982 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 204722008983 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 204722008984 catalytic residues [active] 204722008985 argininosuccinate lyase; Provisional; Region: PRK00855 204722008986 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 204722008987 active sites [active] 204722008988 tetramer interface [polypeptide binding]; other site 204722008989 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 204722008990 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 204722008991 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 204722008992 active site 204722008993 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204722008994 substrate binding site [chemical binding]; other site 204722008995 catalytic residues [active] 204722008996 dimer interface [polypeptide binding]; other site 204722008997 TIGR02302 family protein; Region: aProt_lowcomp 204722008998 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204722008999 active site 204722009000 Methyltransferase domain; Region: Methyltransf_23; pfam13489 204722009001 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 204722009002 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 204722009003 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 204722009004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722009005 homodimer interface [polypeptide binding]; other site 204722009006 catalytic residue [active] 204722009007 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 204722009008 prephenate dehydrogenase; Validated; Region: PRK08507 204722009009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 204722009010 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 204722009011 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 204722009012 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 204722009013 putative active site pocket [active] 204722009014 dimerization interface [polypeptide binding]; other site 204722009015 putative catalytic residue [active] 204722009016 YGGT family; Region: YGGT; pfam02325 204722009017 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 204722009018 dimer interface [polypeptide binding]; other site 204722009019 substrate binding site [chemical binding]; other site 204722009020 metal binding sites [ion binding]; metal-binding site 204722009021 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 204722009022 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 204722009023 putative acyl-acceptor binding pocket; other site 204722009024 Uncharacterized conserved protein [Function unknown]; Region: COG1434 204722009025 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 204722009026 putative active site [active] 204722009027 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 204722009028 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 204722009029 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 204722009030 Walker A/P-loop; other site 204722009031 ATP binding site [chemical binding]; other site 204722009032 Q-loop/lid; other site 204722009033 ABC transporter signature motif; other site 204722009034 Walker B; other site 204722009035 D-loop; other site 204722009036 H-loop/switch region; other site 204722009037 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 204722009038 amphipathic channel; other site 204722009039 Asn-Pro-Ala signature motifs; other site 204722009040 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 204722009041 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 204722009042 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 204722009043 putative catalytic site [active] 204722009044 putative phosphate binding site [ion binding]; other site 204722009045 active site 204722009046 metal binding site A [ion binding]; metal-binding site 204722009047 DNA binding site [nucleotide binding] 204722009048 putative AP binding site [nucleotide binding]; other site 204722009049 putative metal binding site B [ion binding]; other site 204722009050 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204722009051 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 204722009052 ligand binding site [chemical binding]; other site 204722009053 flexible hinge region; other site 204722009054 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204722009055 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 204722009056 active site 204722009057 phosphorylation site [posttranslational modification] 204722009058 intermolecular recognition site; other site 204722009059 dimerization interface [polypeptide binding]; other site 204722009060 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 204722009061 DNA binding site [nucleotide binding] 204722009062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 204722009063 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 204722009064 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 204722009065 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 204722009066 Autotransporter beta-domain; Region: Autotransporter; smart00869 204722009067 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 204722009068 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 204722009069 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 204722009070 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 204722009071 DNA binding residues [nucleotide binding] 204722009072 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 204722009073 dimer interface [polypeptide binding]; other site 204722009074 putative metal binding site [ion binding]; other site 204722009075 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 204722009076 metal-binding site [ion binding] 204722009077 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 204722009078 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 204722009079 metal-binding site [ion binding] 204722009080 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204722009081 Soluble P-type ATPase [General function prediction only]; Region: COG4087 204722009082 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 204722009083 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 204722009084 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 204722009085 metal ion-dependent adhesion site (MIDAS); other site 204722009086 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 204722009087 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 204722009088 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 204722009089 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 204722009090 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 204722009091 HSP70 interaction site [polypeptide binding]; other site 204722009092 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 204722009093 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 204722009094 Domain of unknown function DUF21; Region: DUF21; pfam01595 204722009095 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 204722009096 Transporter associated domain; Region: CorC_HlyC; smart01091 204722009097 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 204722009098 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 204722009099 active site 204722009100 dimer interface [polypeptide binding]; other site 204722009101 metal binding site [ion binding]; metal-binding site 204722009102 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 204722009103 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 204722009104 ADP binding site [chemical binding]; other site 204722009105 magnesium binding site [ion binding]; other site 204722009106 putative shikimate binding site; other site 204722009107 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 204722009108 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 204722009109 active site 204722009110 DNA binding site [nucleotide binding] 204722009111 Int/Topo IB signature motif; other site 204722009112 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 204722009113 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 204722009114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 204722009115 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 204722009116 CPxP motif; other site 204722009117 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 204722009118 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 204722009119 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 204722009120 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 204722009121 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 204722009122 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 204722009123 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 204722009124 metal binding site [ion binding]; metal-binding site 204722009125 putative dimer interface [polypeptide binding]; other site 204722009126 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 204722009127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204722009128 NAD(P) binding site [chemical binding]; other site 204722009129 active site 204722009130 Uncharacterized conserved protein [Function unknown]; Region: COG3791 204722009131 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 204722009132 choline dehydrogenase; Validated; Region: PRK02106 204722009133 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 204722009134 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 204722009135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204722009136 NAD(P) binding site [chemical binding]; other site 204722009137 active site 204722009138 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 204722009139 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 204722009140 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 204722009141 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 204722009142 NAD(P) binding site [chemical binding]; other site 204722009143 catalytic residues [active] 204722009144 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 204722009145 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 204722009146 substrate binding site [chemical binding]; other site 204722009147 oxyanion hole (OAH) forming residues; other site 204722009148 trimer interface [polypeptide binding]; other site 204722009149 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 204722009150 Coenzyme A transferase; Region: CoA_trans; smart00882 204722009151 Coenzyme A transferase; Region: CoA_trans; cl17247 204722009152 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722009153 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722009154 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 204722009155 Transcriptional regulators [Transcription]; Region: PurR; COG1609 204722009156 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 204722009157 DNA binding site [nucleotide binding] 204722009158 domain linker motif; other site 204722009159 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 204722009160 putative dimerization interface [polypeptide binding]; other site 204722009161 putative ligand binding site [chemical binding]; other site 204722009162 Protein of unknown function (DUF993); Region: DUF993; pfam06187 204722009163 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 204722009164 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 204722009165 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 204722009166 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 204722009167 zinc binding site [ion binding]; other site 204722009168 putative ligand binding site [chemical binding]; other site 204722009169 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204722009170 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 204722009171 TM-ABC transporter signature motif; other site 204722009172 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 204722009173 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 204722009174 Walker A/P-loop; other site 204722009175 ATP binding site [chemical binding]; other site 204722009176 Q-loop/lid; other site 204722009177 ABC transporter signature motif; other site 204722009178 Walker B; other site 204722009179 D-loop; other site 204722009180 H-loop/switch region; other site 204722009181 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 204722009182 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 204722009183 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 204722009184 ParB-like nuclease domain; Region: ParB; smart00470 204722009185 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 204722009186 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 204722009187 P-loop; other site 204722009188 Magnesium ion binding site [ion binding]; other site 204722009189 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 204722009190 Magnesium ion binding site [ion binding]; other site 204722009191 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 204722009192 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 204722009193 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 204722009194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204722009195 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 204722009196 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 204722009197 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 204722009198 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 204722009199 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 204722009200 trmE is a tRNA modification GTPase; Region: trmE; cd04164 204722009201 G1 box; other site 204722009202 G1 box; other site 204722009203 GTP/Mg2+ binding site [chemical binding]; other site 204722009204 GTP/Mg2+ binding site [chemical binding]; other site 204722009205 Switch I region; other site 204722009206 Switch I region; other site 204722009207 G2 box; other site 204722009208 G2 box; other site 204722009209 Switch II region; other site 204722009210 G3 box; other site 204722009211 G4 box; other site 204722009212 G5 box; other site 204722009213 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 204722009214 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 204722009215 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 204722009216 catalytic residues [active] 204722009217 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 204722009218 transcription termination factor Rho; Provisional; Region: rho; PRK09376 204722009219 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 204722009220 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 204722009221 RNA binding site [nucleotide binding]; other site 204722009222 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 204722009223 multimer interface [polypeptide binding]; other site 204722009224 Walker A motif; other site 204722009225 ATP binding site [chemical binding]; other site 204722009226 Walker B motif; other site 204722009227 Predicted membrane protein [Function unknown]; Region: COG1981 204722009228 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 204722009229 substrate binding site [chemical binding]; other site 204722009230 active site 204722009231 PEP synthetase regulatory protein; Provisional; Region: PRK05339 204722009232 Maf-like protein; Reviewed; Region: PRK00078 204722009233 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 204722009234 active site 204722009235 dimer interface [polypeptide binding]; other site 204722009236 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 204722009237 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 204722009238 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 204722009239 shikimate binding site; other site 204722009240 NAD(P) binding site [chemical binding]; other site 204722009241 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 204722009242 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 204722009243 CoA-binding site [chemical binding]; other site 204722009244 ATP-binding [chemical binding]; other site 204722009245 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 204722009246 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 204722009247 active site 204722009248 catalytic site [active] 204722009249 substrate binding site [chemical binding]; other site 204722009250 preprotein translocase subunit SecB; Validated; Region: PRK05751 204722009251 SecA binding site; other site 204722009252 Preprotein binding site; other site 204722009253 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 204722009254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 204722009255 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 204722009256 MltA specific insert domain; Region: MltA; pfam03562 204722009257 3D domain; Region: 3D; pfam06725 204722009258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 204722009259 Smr domain; Region: Smr; pfam01713 204722009260 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 204722009261 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 204722009262 sequence-specific DNA binding site [nucleotide binding]; other site 204722009263 salt bridge; other site 204722009264 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 204722009265 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 204722009266 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 204722009267 Walker A motif; other site 204722009268 ATP binding site [chemical binding]; other site 204722009269 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 204722009270 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 204722009271 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 204722009272 active site 204722009273 HslU subunit interaction site [polypeptide binding]; other site 204722009274 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 204722009275 putative active site pocket [active] 204722009276 4-fold oligomerization interface [polypeptide binding]; other site 204722009277 metal binding residues [ion binding]; metal-binding site 204722009278 3-fold/trimer interface [polypeptide binding]; other site 204722009279 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 204722009280 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 204722009281 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 204722009282 putative active site [active] 204722009283 oxyanion strand; other site 204722009284 catalytic triad [active] 204722009285 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 204722009286 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 204722009287 catalytic residues [active] 204722009288 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 204722009289 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 204722009290 substrate binding site [chemical binding]; other site 204722009291 glutamase interaction surface [polypeptide binding]; other site 204722009292 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 204722009293 metal binding site [ion binding]; metal-binding site 204722009294 pantothenate kinase; Provisional; Region: PRK05439 204722009295 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 204722009296 ATP-binding site [chemical binding]; other site 204722009297 CoA-binding site [chemical binding]; other site 204722009298 Mg2+-binding site [ion binding]; other site 204722009299 hypothetical protein; Provisional; Region: PRK09256 204722009300 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 204722009301 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 204722009302 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_ATP; cd00484 204722009303 active site 204722009304 substrate-binding site [chemical binding]; other site 204722009305 metal-binding site [ion binding] 204722009306 ATP binding site [chemical binding]; other site 204722009307 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204722009308 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 204722009309 active site 204722009310 phosphorylation site [posttranslational modification] 204722009311 intermolecular recognition site; other site 204722009312 dimerization interface [polypeptide binding]; other site 204722009313 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 204722009314 DNA binding site [nucleotide binding] 204722009315 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 204722009316 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 204722009317 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722009318 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 204722009319 dimerization interface [polypeptide binding]; other site 204722009320 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 204722009321 dimer interface [polypeptide binding]; other site 204722009322 phosphorylation site [posttranslational modification] 204722009323 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 204722009324 ATP binding site [chemical binding]; other site 204722009325 Mg2+ binding site [ion binding]; other site 204722009326 G-X-G motif; other site 204722009327 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 204722009328 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 204722009329 Hpr binding site; other site 204722009330 active site 204722009331 homohexamer subunit interaction site [polypeptide binding]; other site 204722009332 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 204722009333 active pocket/dimerization site; other site 204722009334 active site 204722009335 phosphorylation site [posttranslational modification] 204722009336 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 204722009337 dimerization domain swap beta strand [polypeptide binding]; other site 204722009338 regulatory protein interface [polypeptide binding]; other site 204722009339 active site 204722009340 regulatory phosphorylation site [posttranslational modification]; other site 204722009341 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 204722009342 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 204722009343 homotetramer interface [polypeptide binding]; other site 204722009344 ligand binding site [chemical binding]; other site 204722009345 catalytic site [active] 204722009346 NAD binding site [chemical binding]; other site 204722009347 PAS fold; Region: PAS_7; pfam12860 204722009348 PAS fold; Region: PAS_7; pfam12860 204722009349 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204722009350 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 204722009351 dimer interface [polypeptide binding]; other site 204722009352 phosphorylation site [posttranslational modification] 204722009353 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 204722009354 ATP binding site [chemical binding]; other site 204722009355 Mg2+ binding site [ion binding]; other site 204722009356 G-X-G motif; other site 204722009357 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 204722009358 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 204722009359 Phosphotransferase enzyme family; Region: APH; pfam01636 204722009360 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 204722009361 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 204722009362 Substrate binding site; other site 204722009363 metal-binding site 204722009364 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 204722009365 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 204722009366 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 204722009367 Part of AAA domain; Region: AAA_19; pfam13245 204722009368 Family description; Region: UvrD_C_2; pfam13538 204722009369 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 204722009370 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 204722009371 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 204722009372 catalytic residues [active] 204722009373 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 204722009374 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204722009375 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 204722009376 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 204722009377 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 204722009378 substrate binding site [chemical binding]; other site 204722009379 active site 204722009380 catalytic residues [active] 204722009381 heterodimer interface [polypeptide binding]; other site 204722009382 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 204722009383 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 204722009384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204722009385 catalytic residue [active] 204722009386 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 204722009387 active site 204722009388 Uncharacterized conserved protein [Function unknown]; Region: COG1434 204722009389 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 204722009390 putative active site [active] 204722009391 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 204722009392 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 204722009393 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 204722009394 benzoate transporter; Region: benE; TIGR00843 204722009395 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204722009396 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 204722009397 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 204722009398 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 204722009399 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 204722009400 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 204722009401 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 204722009402 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 204722009403 23S rRNA binding site [nucleotide binding]; other site 204722009404 L21 binding site [polypeptide binding]; other site 204722009405 L13 binding site [polypeptide binding]; other site 204722009406 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 204722009407 active site 204722009408 ATP binding site [chemical binding]; other site 204722009409 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 204722009410 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 204722009411 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 204722009412 dimer interface [polypeptide binding]; other site 204722009413 motif 1; other site 204722009414 active site 204722009415 motif 2; other site 204722009416 motif 3; other site 204722009417 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 204722009418 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 204722009419 putative tRNA-binding site [nucleotide binding]; other site 204722009420 B3/4 domain; Region: B3_4; pfam03483 204722009421 tRNA synthetase B5 domain; Region: B5; smart00874 204722009422 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 204722009423 dimer interface [polypeptide binding]; other site 204722009424 motif 1; other site 204722009425 motif 3; other site 204722009426 motif 2; other site 204722009427 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 204722009428 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 204722009429 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 204722009430 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 204722009431 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 204722009432 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 204722009433 nucleotide binding site [chemical binding]; other site 204722009434 NEF interaction site [polypeptide binding]; other site 204722009435 SBD interface [polypeptide binding]; other site 204722009436 chaperone protein DnaJ; Provisional; Region: PRK10767 204722009437 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 204722009438 HSP70 interaction site [polypeptide binding]; other site 204722009439 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 204722009440 substrate binding site [polypeptide binding]; other site 204722009441 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 204722009442 Zn binding sites [ion binding]; other site 204722009443 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 204722009444 dimer interface [polypeptide binding]; other site 204722009445 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 204722009446 S-adenosylmethionine binding site [chemical binding]; other site 204722009447 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 204722009448 active site 204722009449 dimer interface [polypeptide binding]; other site 204722009450 Uncharacterized conserved protein [Function unknown]; Region: COG5470 204722009451 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 204722009452 glutathione synthetase; Provisional; Region: PRK05246 204722009453 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 204722009454 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 204722009455 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 204722009456 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 204722009457 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 204722009458 Walker A motif; other site 204722009459 ATP binding site [chemical binding]; other site 204722009460 Walker B motif; other site 204722009461 arginine finger; other site 204722009462 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 204722009463 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 204722009464 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 204722009465 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 204722009466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 204722009467 PBP superfamily domain; Region: PBP_like_2; pfam12849 204722009468 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 204722009469 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 204722009470 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722009471 dimer interface [polypeptide binding]; other site 204722009472 conserved gate region; other site 204722009473 putative PBP binding loops; other site 204722009474 ABC-ATPase subunit interface; other site 204722009475 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 204722009476 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 204722009477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722009478 dimer interface [polypeptide binding]; other site 204722009479 conserved gate region; other site 204722009480 putative PBP binding loops; other site 204722009481 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 204722009482 ABC-ATPase subunit interface; other site 204722009483 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 204722009484 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 204722009485 Walker A/P-loop; other site 204722009486 ATP binding site [chemical binding]; other site 204722009487 Q-loop/lid; other site 204722009488 ABC transporter signature motif; other site 204722009489 Walker B; other site 204722009490 D-loop; other site 204722009491 H-loop/switch region; other site 204722009492 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 204722009493 PhoU domain; Region: PhoU; pfam01895 204722009494 PhoU domain; Region: PhoU; pfam01895 204722009495 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 204722009496 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 204722009497 active site 204722009498 phosphorylation site [posttranslational modification] 204722009499 intermolecular recognition site; other site 204722009500 dimerization interface [polypeptide binding]; other site 204722009501 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 204722009502 DNA binding site [nucleotide binding] 204722009503 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 204722009504 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 204722009505 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 204722009506 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 204722009507 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 204722009508 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 204722009509 dimerization interface [polypeptide binding]; other site 204722009510 DPS ferroxidase diiron center [ion binding]; other site 204722009511 ion pore; other site 204722009512 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 204722009513 Glycoprotease family; Region: Peptidase_M22; pfam00814 204722009514 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 204722009515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204722009516 Coenzyme A binding pocket [chemical binding]; other site 204722009517 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 204722009518 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 204722009519 putative acyl-acceptor binding pocket; other site 204722009520 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 204722009521 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 204722009522 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 204722009523 FeS/SAM binding site; other site 204722009524 TRAM domain; Region: TRAM; cl01282 204722009525 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 204722009526 PhoH-like protein; Region: PhoH; pfam02562 204722009527 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 204722009528 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 204722009529 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 204722009530 Transporter associated domain; Region: CorC_HlyC; smart01091 204722009531 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 204722009532 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 204722009533 putative active site [active] 204722009534 catalytic triad [active] 204722009535 putative dimer interface [polypeptide binding]; other site 204722009536 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 204722009537 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 204722009538 non-specific DNA binding site [nucleotide binding]; other site 204722009539 salt bridge; other site 204722009540 sequence-specific DNA binding site [nucleotide binding]; other site 204722009541 S-adenosylmethionine synthetase; Validated; Region: PRK05250 204722009542 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 204722009543 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 204722009544 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 204722009545 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 204722009546 ribosome maturation protein RimP; Reviewed; Region: PRK00092 204722009547 Sm and related proteins; Region: Sm_like; cl00259 204722009548 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 204722009549 putative oligomer interface [polypeptide binding]; other site 204722009550 putative RNA binding site [nucleotide binding]; other site 204722009551 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 204722009552 NusA N-terminal domain; Region: NusA_N; pfam08529 204722009553 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 204722009554 RNA binding site [nucleotide binding]; other site 204722009555 homodimer interface [polypeptide binding]; other site 204722009556 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 204722009557 G-X-X-G motif; other site 204722009558 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 204722009559 G-X-X-G motif; other site 204722009560 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 204722009561 hypothetical protein; Provisional; Region: PRK09190 204722009562 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 204722009563 putative RNA binding cleft [nucleotide binding]; other site 204722009564 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 204722009565 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 204722009566 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 204722009567 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 204722009568 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 204722009569 G1 box; other site 204722009570 putative GEF interaction site [polypeptide binding]; other site 204722009571 GTP/Mg2+ binding site [chemical binding]; other site 204722009572 Switch I region; other site 204722009573 G2 box; other site 204722009574 G3 box; other site 204722009575 Switch II region; other site 204722009576 G4 box; other site 204722009577 G5 box; other site 204722009578 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 204722009579 Translation-initiation factor 2; Region: IF-2; pfam11987 204722009580 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 204722009581 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 204722009582 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 204722009583 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 204722009584 RNA binding site [nucleotide binding]; other site 204722009585 active site 204722009586 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 204722009587 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 204722009588 16S/18S rRNA binding site [nucleotide binding]; other site 204722009589 S13e-L30e interaction site [polypeptide binding]; other site 204722009590 25S rRNA binding site [nucleotide binding]; other site 204722009591 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 204722009592 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 204722009593 RNase E interface [polypeptide binding]; other site 204722009594 trimer interface [polypeptide binding]; other site 204722009595 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 204722009596 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 204722009597 RNase E interface [polypeptide binding]; other site 204722009598 trimer interface [polypeptide binding]; other site 204722009599 active site 204722009600 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 204722009601 putative nucleic acid binding region [nucleotide binding]; other site 204722009602 G-X-X-G motif; other site 204722009603 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 204722009604 RNA binding site [nucleotide binding]; other site 204722009605 domain interface; other site 204722009606 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 204722009607 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 204722009608 S-adenosylmethionine binding site [chemical binding]; other site 204722009609 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 204722009610 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 204722009611 NAD binding site [chemical binding]; other site 204722009612 homotetramer interface [polypeptide binding]; other site 204722009613 homodimer interface [polypeptide binding]; other site 204722009614 substrate binding site [chemical binding]; other site 204722009615 active site 204722009616 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 204722009617 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 204722009618 dimer interface [polypeptide binding]; other site 204722009619 active site 204722009620 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 204722009621 active site 1 [active] 204722009622 dimer interface [polypeptide binding]; other site 204722009623 active site 2 [active] 204722009624 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 204722009625 metal binding site 2 [ion binding]; metal-binding site 204722009626 putative DNA binding helix; other site 204722009627 metal binding site 1 [ion binding]; metal-binding site 204722009628 dimer interface [polypeptide binding]; other site 204722009629 structural Zn2+ binding site [ion binding]; other site 204722009630 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 204722009631 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 204722009632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 204722009633 Bacterial SH3 domain; Region: SH3_4; pfam06347 204722009634 Bacterial SH3 domain; Region: SH3_4; pfam06347 204722009635 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 204722009636 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 204722009637 dimerization interface [polypeptide binding]; other site 204722009638 ligand binding site [chemical binding]; other site 204722009639 NADP binding site [chemical binding]; other site 204722009640 catalytic site [active] 204722009641 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204722009642 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 204722009643 NlpC/P60 family; Region: NLPC_P60; cl17555 204722009644 Transcriptional regulators [Transcription]; Region: MarR; COG1846 204722009645 MarR family; Region: MarR; pfam01047 204722009646 multifunctional aminopeptidase A; Provisional; Region: PRK00913 204722009647 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 204722009648 interface (dimer of trimers) [polypeptide binding]; other site 204722009649 Substrate-binding/catalytic site; other site 204722009650 Zn-binding sites [ion binding]; other site 204722009651 Flp/Fap pilin component; Region: Flp_Fap; cl01585 204722009652 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 204722009653 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 204722009654 DNA binding site [nucleotide binding] 204722009655 catalytic residue [active] 204722009656 H2TH interface [polypeptide binding]; other site 204722009657 putative catalytic residues [active] 204722009658 turnover-facilitating residue; other site 204722009659 intercalation triad [nucleotide binding]; other site 204722009660 8OG recognition residue [nucleotide binding]; other site 204722009661 putative reading head residues; other site 204722009662 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 204722009663 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 204722009664 enoyl-CoA hydratase; Provisional; Region: PRK05862 204722009665 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 204722009666 substrate binding site [chemical binding]; other site 204722009667 oxyanion hole (OAH) forming residues; other site 204722009668 trimer interface [polypeptide binding]; other site 204722009669 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239